Multiple sequence alignment - TraesCS7D01G234000

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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 TraesCS7D01G234000 chr7D 100.000 6234 0 0 1 6234 195652604 195646371 0.000000e+00 11513.0
1 TraesCS7D01G234000 chr7A 95.907 3714 95 20 1543 5242 205488474 205484804 0.000000e+00 5963.0
2 TraesCS7D01G234000 chr7A 95.861 459 12 2 1085 1537 205488971 205488514 0.000000e+00 736.0
3 TraesCS7D01G234000 chr7A 86.914 512 44 10 5603 6104 205484214 205483716 2.540000e-153 553.0
4 TraesCS7D01G234000 chr7A 98.039 153 3 0 922 1074 205489322 205489170 3.700000e-67 267.0
5 TraesCS7D01G234000 chr7A 87.234 94 5 4 2743 2830 247257070 247256978 3.980000e-17 100.0
6 TraesCS7D01G234000 chr7A 93.750 64 4 0 2394 2457 205487686 205487623 5.140000e-16 97.1
7 TraesCS7D01G234000 chr7A 91.549 71 0 4 868 938 205498784 205498720 6.650000e-15 93.5
8 TraesCS7D01G234000 chr7B 93.836 3861 163 35 2202 6028 159527937 159524118 0.000000e+00 5742.0
9 TraesCS7D01G234000 chr7B 95.745 658 20 5 1538 2192 159528640 159527988 0.000000e+00 1053.0
10 TraesCS7D01G234000 chr7B 95.415 458 14 1 1080 1537 159529135 159528685 0.000000e+00 723.0
11 TraesCS7D01G234000 chr7B 96.707 334 11 0 316 649 159534878 159534545 1.960000e-154 556.0
12 TraesCS7D01G234000 chr7B 95.031 322 16 0 1 322 159540609 159540288 2.010000e-139 507.0
13 TraesCS7D01G234000 chr7B 85.530 387 19 17 636 1014 159529888 159529531 2.750000e-98 370.0
14 TraesCS7D01G234000 chr7B 93.651 63 4 0 2394 2456 159527805 159527743 1.850000e-15 95.3
15 TraesCS7D01G234000 chr4A 92.157 765 50 4 1 764 420518765 420519520 0.000000e+00 1072.0
16 TraesCS7D01G234000 chr4A 78.060 433 79 11 4201 4619 396759850 396759420 6.200000e-65 259.0
17 TraesCS7D01G234000 chr4A 85.417 96 8 3 2739 2828 626981484 626981579 1.850000e-15 95.3
18 TraesCS7D01G234000 chr4B 76.393 377 80 8 4201 4572 193996247 193995875 1.770000e-45 195.0
19 TraesCS7D01G234000 chr5B 87.500 96 6 3 2739 2828 684062713 684062618 8.550000e-19 106.0
20 TraesCS7D01G234000 chr5A 96.667 60 2 0 2766 2825 364712658 364712717 3.980000e-17 100.0
21 TraesCS7D01G234000 chr3D 88.235 85 4 3 2747 2825 39318284 39318200 5.140000e-16 97.1
22 TraesCS7D01G234000 chr3D 93.750 64 4 0 2766 2829 360634042 360634105 5.140000e-16 97.1
23 TraesCS7D01G234000 chr3A 87.356 87 5 4 2745 2825 108468050 108467964 1.850000e-15 95.3
24 TraesCS7D01G234000 chr6A 87.059 85 5 3 2747 2825 602667314 602667398 2.390000e-14 91.6


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 TraesCS7D01G234000 chr7D 195646371 195652604 6233 True 11513.00 11513 100.0000 1 6234 1 chr7D.!!$R1 6233
1 TraesCS7D01G234000 chr7A 205483716 205489322 5606 True 1523.22 5963 94.0942 922 6104 5 chr7A.!!$R3 5182
2 TraesCS7D01G234000 chr7B 159524118 159529888 5770 True 1596.66 5742 92.8354 636 6028 5 chr7B.!!$R3 5392
3 TraesCS7D01G234000 chr4A 420518765 420519520 755 False 1072.00 1072 92.1570 1 764 1 chr4A.!!$F1 763

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
443 444 0.251354 GAAGGAGCAGCTGATGTGGA 59.749 55.000 20.43 0.0 0.00 4.02 F
1127 1643 1.877165 GATCGCCGTTCCCGTTCTC 60.877 63.158 0.00 0.0 0.00 2.87 F
2520 3130 0.178882 ACCCCTAAACTTCCTCCCGT 60.179 55.000 0.00 0.0 0.00 5.28 F
3410 4021 0.040958 AGAAGCAAAGCAGTTTCGCG 60.041 50.000 0.00 0.0 34.42 5.87 F
3665 4292 3.027974 ACGAGTAGTCCTTTTCTGCAC 57.972 47.619 0.00 0.0 0.00 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1492 2014 1.527034 AGCAAGCGAAAGAAGCATCA 58.473 45.000 0.00 0.0 37.01 3.07 R
2706 3317 0.608035 TAGCAAAGCCCCTGGTTTCG 60.608 55.000 0.00 0.0 40.06 3.46 R
4184 4814 1.202698 ACTTCGCCATCAGGATTAGGC 60.203 52.381 0.00 0.0 43.61 3.93 R
4544 5174 0.823356 GCCCTTGTGCACTCTTTCCA 60.823 55.000 19.41 0.0 0.00 3.53 R
5586 6535 1.005340 CATGTTTCTGCTCTCTCCGC 58.995 55.000 0.00 0.0 0.00 5.54 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
61 62 4.215109 CTCCCTTCCAACCAAAAAGAAGA 58.785 43.478 0.00 0.00 38.38 2.87
70 71 5.284079 CAACCAAAAAGAAGATGTCTGTGG 58.716 41.667 0.00 0.00 38.62 4.17
81 82 1.079750 GTCTGTGGCGGTCCTTCTC 60.080 63.158 0.00 0.00 0.00 2.87
82 83 1.228894 TCTGTGGCGGTCCTTCTCT 60.229 57.895 0.00 0.00 0.00 3.10
83 84 1.079543 CTGTGGCGGTCCTTCTCTG 60.080 63.158 0.00 0.00 0.00 3.35
84 85 2.266055 GTGGCGGTCCTTCTCTGG 59.734 66.667 0.00 0.00 0.00 3.86
85 86 3.003173 TGGCGGTCCTTCTCTGGG 61.003 66.667 0.00 0.00 0.00 4.45
86 87 2.683933 GGCGGTCCTTCTCTGGGA 60.684 66.667 0.00 0.00 0.00 4.37
95 96 2.587777 TCCTTCTCTGGGACTAGTGGAT 59.412 50.000 0.00 0.00 0.00 3.41
123 124 3.107661 AAAACGTACGCGGGCGAG 61.108 61.111 26.26 12.42 43.45 5.03
126 127 3.556543 AACGTACGCGGGCGAGAAA 62.557 57.895 26.26 0.00 43.45 2.52
129 130 2.023223 GTACGCGGGCGAGAAACAA 61.023 57.895 20.98 0.00 42.83 2.83
135 136 1.011968 CGGGCGAGAAACAACGATCA 61.012 55.000 0.00 0.00 0.00 2.92
136 137 1.153353 GGGCGAGAAACAACGATCAA 58.847 50.000 0.00 0.00 0.00 2.57
142 143 2.548057 GAGAAACAACGATCAACAGCCA 59.452 45.455 0.00 0.00 0.00 4.75
146 147 2.297701 ACAACGATCAACAGCCAAAGT 58.702 42.857 0.00 0.00 0.00 2.66
177 178 5.073311 TCATTACTAAGCACCTGACAGAC 57.927 43.478 3.32 0.00 0.00 3.51
180 181 5.546621 TTACTAAGCACCTGACAGACTTT 57.453 39.130 3.32 0.00 0.00 2.66
204 205 2.418976 GAGTCTCAAAATACAACCCGCC 59.581 50.000 0.00 0.00 0.00 6.13
228 229 3.305403 CGACAGCTCCAGTCTTAGTTCAA 60.305 47.826 1.68 0.00 33.89 2.69
258 259 4.168291 CCTCCTGAAGCGGGCCTC 62.168 72.222 0.84 0.00 0.00 4.70
266 267 2.291741 CTGAAGCGGGCCTCATAAAATC 59.708 50.000 0.84 0.00 0.00 2.17
304 305 3.986996 TCCATGCTGATTCAGAGTCAA 57.013 42.857 17.87 0.00 32.44 3.18
308 309 1.980765 TGCTGATTCAGAGTCAAGGGT 59.019 47.619 17.87 0.00 32.44 4.34
379 380 0.889994 TGGCAAGATGGTGCATGTTC 59.110 50.000 0.00 0.00 46.81 3.18
414 415 1.863454 GCTGAGGTGATCGCTTGTATG 59.137 52.381 6.18 0.00 0.00 2.39
415 416 2.481969 GCTGAGGTGATCGCTTGTATGA 60.482 50.000 6.18 0.00 0.00 2.15
429 430 3.904800 TGTATGAAGGCAATCGAAGGA 57.095 42.857 0.00 0.00 0.00 3.36
439 440 1.598132 CAATCGAAGGAGCAGCTGATG 59.402 52.381 20.43 0.00 0.00 3.07
443 444 0.251354 GAAGGAGCAGCTGATGTGGA 59.749 55.000 20.43 0.00 0.00 4.02
457 458 4.661222 TGATGTGGAAGCACAAAGGATTA 58.339 39.130 0.00 0.00 38.69 1.75
458 459 5.263599 TGATGTGGAAGCACAAAGGATTAT 58.736 37.500 0.00 0.00 38.69 1.28
459 460 5.716228 TGATGTGGAAGCACAAAGGATTATT 59.284 36.000 0.00 0.00 38.69 1.40
463 464 6.705381 TGTGGAAGCACAAAGGATTATTTTTG 59.295 34.615 0.00 2.91 39.55 2.44
478 479 9.912634 GGATTATTTTTGAATCAGACTGTTTGA 57.087 29.630 3.32 3.32 35.40 2.69
490 491 5.467735 TCAGACTGTTTGACAATGATCACTG 59.532 40.000 1.88 1.88 0.00 3.66
491 492 5.237996 CAGACTGTTTGACAATGATCACTGT 59.762 40.000 10.02 10.02 0.00 3.55
515 516 3.152400 GGGGCGGGAGTACGATGT 61.152 66.667 0.00 0.00 35.47 3.06
582 583 7.064847 TGCCATGCATCTTTTGAATTTTATGAC 59.935 33.333 0.00 0.00 31.71 3.06
707 708 3.279434 ACTTTGTTTCTGGTCTGGTGAC 58.721 45.455 0.00 0.00 42.22 3.67
735 736 3.688694 ATGGTGCACCGAGTTTAAGTA 57.311 42.857 30.07 9.57 39.43 2.24
775 778 6.745159 TTTTAAAGAAAAGGCCAAACAACC 57.255 33.333 5.01 0.00 30.89 3.77
794 797 2.817844 ACCGAGACAACAAAAATAGGGC 59.182 45.455 0.00 0.00 0.00 5.19
795 798 2.817258 CCGAGACAACAAAAATAGGGCA 59.183 45.455 0.00 0.00 0.00 5.36
796 799 3.443681 CCGAGACAACAAAAATAGGGCAT 59.556 43.478 0.00 0.00 0.00 4.40
797 800 4.638421 CCGAGACAACAAAAATAGGGCATA 59.362 41.667 0.00 0.00 0.00 3.14
798 801 5.299279 CCGAGACAACAAAAATAGGGCATAT 59.701 40.000 0.00 0.00 0.00 1.78
799 802 6.430451 CGAGACAACAAAAATAGGGCATATC 58.570 40.000 0.00 0.00 0.00 1.63
800 803 6.260936 CGAGACAACAAAAATAGGGCATATCT 59.739 38.462 0.00 0.00 0.00 1.98
801 804 7.519008 CGAGACAACAAAAATAGGGCATATCTC 60.519 40.741 0.00 0.00 0.00 2.75
802 805 7.349598 AGACAACAAAAATAGGGCATATCTCT 58.650 34.615 0.00 0.00 0.00 3.10
803 806 7.836183 AGACAACAAAAATAGGGCATATCTCTT 59.164 33.333 0.00 0.00 0.00 2.85
804 807 9.120538 GACAACAAAAATAGGGCATATCTCTTA 57.879 33.333 0.00 0.00 0.00 2.10
805 808 9.125026 ACAACAAAAATAGGGCATATCTCTTAG 57.875 33.333 0.00 0.00 0.00 2.18
806 809 8.571336 CAACAAAAATAGGGCATATCTCTTAGG 58.429 37.037 0.00 0.00 0.00 2.69
807 810 7.816411 ACAAAAATAGGGCATATCTCTTAGGT 58.184 34.615 0.00 0.00 0.00 3.08
808 811 8.945193 ACAAAAATAGGGCATATCTCTTAGGTA 58.055 33.333 0.00 0.00 0.00 3.08
809 812 9.793259 CAAAAATAGGGCATATCTCTTAGGTAA 57.207 33.333 0.00 0.00 0.00 2.85
919 928 6.821616 ATCTCTCTCTCTCTCTTTCTCTCT 57.178 41.667 0.00 0.00 0.00 3.10
1008 1017 4.430765 CTTAGCGTCACCGGCGGT 62.431 66.667 28.83 28.83 42.79 5.68
1127 1643 1.877165 GATCGCCGTTCCCGTTCTC 60.877 63.158 0.00 0.00 0.00 2.87
1374 1896 2.097954 TCGATTGATGAACTTGCCATGC 59.902 45.455 0.00 0.00 0.00 4.06
1401 1923 5.360591 GGAATCAGATGTTCCATACGTTCT 58.639 41.667 0.00 0.00 43.67 3.01
1492 2014 8.908903 TCAATTTTGCGATTTAGGGTTATATGT 58.091 29.630 0.00 0.00 0.00 2.29
1536 2102 4.764679 TTAGCTTTGAACGCATGAACAT 57.235 36.364 0.00 0.00 0.00 2.71
1572 2138 5.140454 ACTGAATGTAGTTTCCTTGCCTTT 58.860 37.500 0.00 0.00 0.00 3.11
1615 2181 1.145945 TGGTGGTGGTTTGGCTCAATA 59.854 47.619 0.00 0.00 0.00 1.90
1796 2362 3.119280 AGCACAAACAACCAAAGTACACC 60.119 43.478 0.00 0.00 0.00 4.16
1874 2440 5.445142 GCAAGATATAAAGATCGGATGCACG 60.445 44.000 0.00 0.00 36.09 5.34
1920 2487 6.759497 ACAGATGCCTTCTTTTATGGTTAC 57.241 37.500 0.00 0.00 29.93 2.50
1949 2516 8.961134 TGTCCTTACCCCATAATAATTTATCCA 58.039 33.333 0.00 0.00 0.00 3.41
2103 2671 1.134995 TCTGTCTGTCCATGCTTAGCG 60.135 52.381 0.00 0.00 0.00 4.26
2142 2710 3.808726 GCTGAATGCTGACTTCTCTATGG 59.191 47.826 0.00 0.00 38.95 2.74
2209 2818 2.054799 TGTGCTTAGACCAAGGAAGGT 58.945 47.619 0.00 0.00 46.82 3.50
2252 2861 6.315714 TCCAATTCTATCCCTAATCTCGAGT 58.684 40.000 13.13 0.00 0.00 4.18
2253 2862 6.434652 TCCAATTCTATCCCTAATCTCGAGTC 59.565 42.308 13.13 0.00 0.00 3.36
2285 2894 0.313672 GGCAAGTCAATGGCGAACAA 59.686 50.000 0.00 0.00 36.07 2.83
2440 3050 4.469469 AAAGAACTCCTTGATTTGGGGA 57.531 40.909 0.00 0.00 34.79 4.81
2520 3130 0.178882 ACCCCTAAACTTCCTCCCGT 60.179 55.000 0.00 0.00 0.00 5.28
2549 3159 6.662865 TTCTTTTGGGCAAAACAGATGATA 57.337 33.333 0.00 0.00 35.57 2.15
2694 3305 1.614317 GCATACCACTTGTTCCTGCCT 60.614 52.381 0.00 0.00 0.00 4.75
2695 3306 2.795329 CATACCACTTGTTCCTGCCTT 58.205 47.619 0.00 0.00 0.00 4.35
2706 3317 7.169140 CACTTGTTCCTGCCTTAAATGTTAAAC 59.831 37.037 0.00 0.00 0.00 2.01
2718 3329 1.320507 TGTTAAACGAAACCAGGGGC 58.679 50.000 0.00 0.00 0.00 5.80
2833 3444 7.440198 AGTTTACAGAGGGAGTAGTTTGTAAC 58.560 38.462 0.00 0.00 32.58 2.50
2931 3542 7.291182 ACTTCCTTGTAGCCAATACAGATATCT 59.709 37.037 0.00 0.00 45.05 1.98
3410 4021 0.040958 AGAAGCAAAGCAGTTTCGCG 60.041 50.000 0.00 0.00 34.42 5.87
3568 4194 7.385752 CCTGGTACGTTTTCTTCTAAACACATA 59.614 37.037 0.00 0.00 37.77 2.29
3569 4195 8.836268 TGGTACGTTTTCTTCTAAACACATAT 57.164 30.769 0.00 0.00 37.77 1.78
3665 4292 3.027974 ACGAGTAGTCCTTTTCTGCAC 57.972 47.619 0.00 0.00 0.00 4.57
3903 4530 6.341316 GTGTGTAATCTTTCTCAGGCTCATA 58.659 40.000 0.00 0.00 0.00 2.15
4142 4772 4.709886 TCAATGAAGTACGAAGGAGATGGA 59.290 41.667 0.00 0.00 0.00 3.41
4373 5003 3.660111 GGCAAGCGCTGTTCCGTT 61.660 61.111 12.58 0.00 38.60 4.44
4544 5174 1.608590 CGGTGCAAGTTTGAAGGATGT 59.391 47.619 0.00 0.00 0.00 3.06
4909 5539 1.982660 TCACCTGAGACCGCTATAGG 58.017 55.000 1.04 0.00 35.66 2.57
4938 5568 1.871772 CCACCGCTTCAGCTTCAAG 59.128 57.895 0.00 0.00 39.32 3.02
5102 5738 6.764560 ACTAAACGGTTGAGTCTGTTACAAAT 59.235 34.615 4.99 0.00 36.10 2.32
5242 5910 5.233263 GCACATTGTGGTTTACATTTCGTTT 59.767 36.000 18.05 0.00 39.48 3.60
5249 5917 6.031471 GTGGTTTACATTTCGTTTGTCTGTT 58.969 36.000 0.00 0.00 0.00 3.16
5264 5932 0.504384 CTGTTGTCTGCTCGTTGTCG 59.496 55.000 0.00 0.00 38.55 4.35
5342 6280 6.115446 TGTTCTCGGATATGCAGATTTTCTT 58.885 36.000 0.00 0.00 0.00 2.52
5521 6464 7.724061 TGGATTCATAGTACATACTGTGCTCTA 59.276 37.037 10.12 5.86 42.30 2.43
5556 6499 4.357947 GCGAGCGACCTCCACACA 62.358 66.667 0.00 0.00 34.49 3.72
5586 6535 5.106712 TGTGCTCTTTATTGTAAAGAAGGCG 60.107 40.000 11.87 3.88 36.01 5.52
5595 6544 0.456221 TAAAGAAGGCGCGGAGAGAG 59.544 55.000 8.83 0.00 0.00 3.20
5659 6608 1.522668 TGCACCTGAATTGGAAGACG 58.477 50.000 0.00 0.00 0.00 4.18
5663 6612 3.243401 GCACCTGAATTGGAAGACGTTTT 60.243 43.478 0.00 0.00 0.00 2.43
5778 6732 0.108520 GTCGTGGTATCCTCGGCAAA 60.109 55.000 9.41 0.00 43.32 3.68
5779 6733 0.609151 TCGTGGTATCCTCGGCAAAA 59.391 50.000 9.70 0.00 40.35 2.44
5780 6734 1.002201 TCGTGGTATCCTCGGCAAAAA 59.998 47.619 9.70 0.00 40.35 1.94
5781 6735 1.396996 CGTGGTATCCTCGGCAAAAAG 59.603 52.381 2.86 0.00 36.95 2.27
5782 6736 2.706890 GTGGTATCCTCGGCAAAAAGA 58.293 47.619 0.00 0.00 0.00 2.52
5783 6737 3.078837 GTGGTATCCTCGGCAAAAAGAA 58.921 45.455 0.00 0.00 0.00 2.52
5786 6740 4.217550 TGGTATCCTCGGCAAAAAGAAAAG 59.782 41.667 0.00 0.00 0.00 2.27
5812 6766 3.665745 AGCAAAATCGCAAGTCCAAAT 57.334 38.095 0.00 0.00 39.48 2.32
5864 6822 8.964476 TTTGTCCAGAATAGGTATTCATTCTC 57.036 34.615 11.42 0.91 43.43 2.87
5868 6826 6.778069 TCCAGAATAGGTATTCATTCTCTCGT 59.222 38.462 11.42 0.00 43.43 4.18
5983 6942 1.386525 CCAATCCGAGTGCAATGGGG 61.387 60.000 15.43 4.92 0.00 4.96
6028 6987 7.371159 TCCGAGATGCTCAATGTATTTACTAG 58.629 38.462 0.00 0.00 0.00 2.57
6063 7022 1.203994 ACGGATCAAACTGGAGGTACG 59.796 52.381 0.00 0.00 0.00 3.67
6065 7024 1.134491 GGATCAAACTGGAGGTACGGG 60.134 57.143 0.00 0.00 0.00 5.28
6068 7027 0.673644 CAAACTGGAGGTACGGGCTG 60.674 60.000 0.00 0.00 0.00 4.85
6090 7049 6.184580 TGAGTACAAAATTTGACGTGTGTT 57.815 33.333 13.19 0.00 0.00 3.32
6104 7063 3.246699 ACGTGTGTTCCAATGTTTCGTAG 59.753 43.478 0.00 0.00 0.00 3.51
6105 7064 3.363575 CGTGTGTTCCAATGTTTCGTAGG 60.364 47.826 0.00 0.00 0.00 3.18
6106 7065 3.562557 GTGTGTTCCAATGTTTCGTAGGT 59.437 43.478 0.00 0.00 0.00 3.08
6107 7066 3.562141 TGTGTTCCAATGTTTCGTAGGTG 59.438 43.478 0.00 0.00 0.00 4.00
6108 7067 3.562557 GTGTTCCAATGTTTCGTAGGTGT 59.437 43.478 0.00 0.00 0.00 4.16
6109 7068 3.810941 TGTTCCAATGTTTCGTAGGTGTC 59.189 43.478 0.00 0.00 0.00 3.67
6110 7069 3.755112 TCCAATGTTTCGTAGGTGTCA 57.245 42.857 0.00 0.00 0.00 3.58
6111 7070 4.074627 TCCAATGTTTCGTAGGTGTCAA 57.925 40.909 0.00 0.00 0.00 3.18
6112 7071 4.062293 TCCAATGTTTCGTAGGTGTCAAG 58.938 43.478 0.00 0.00 0.00 3.02
6113 7072 4.062293 CCAATGTTTCGTAGGTGTCAAGA 58.938 43.478 0.00 0.00 0.00 3.02
6114 7073 4.513692 CCAATGTTTCGTAGGTGTCAAGAA 59.486 41.667 0.00 0.00 0.00 2.52
6115 7074 5.008217 CCAATGTTTCGTAGGTGTCAAGAAA 59.992 40.000 0.00 0.00 0.00 2.52
6116 7075 5.924475 ATGTTTCGTAGGTGTCAAGAAAG 57.076 39.130 0.00 0.00 32.39 2.62
6117 7076 4.761975 TGTTTCGTAGGTGTCAAGAAAGT 58.238 39.130 0.00 0.00 32.39 2.66
6118 7077 5.180271 TGTTTCGTAGGTGTCAAGAAAGTT 58.820 37.500 0.00 0.00 32.39 2.66
6119 7078 6.339730 TGTTTCGTAGGTGTCAAGAAAGTTA 58.660 36.000 0.00 0.00 32.39 2.24
6120 7079 6.817641 TGTTTCGTAGGTGTCAAGAAAGTTAA 59.182 34.615 0.00 0.00 32.39 2.01
6121 7080 7.010738 TGTTTCGTAGGTGTCAAGAAAGTTAAG 59.989 37.037 0.00 0.00 32.39 1.85
6122 7081 6.152932 TCGTAGGTGTCAAGAAAGTTAAGT 57.847 37.500 0.00 0.00 0.00 2.24
6123 7082 6.576185 TCGTAGGTGTCAAGAAAGTTAAGTT 58.424 36.000 0.00 0.00 0.00 2.66
6124 7083 7.715657 TCGTAGGTGTCAAGAAAGTTAAGTTA 58.284 34.615 0.00 0.00 0.00 2.24
6125 7084 7.864379 TCGTAGGTGTCAAGAAAGTTAAGTTAG 59.136 37.037 0.00 0.00 0.00 2.34
6126 7085 6.862711 AGGTGTCAAGAAAGTTAAGTTAGC 57.137 37.500 0.00 0.00 0.00 3.09
6127 7086 6.354130 AGGTGTCAAGAAAGTTAAGTTAGCA 58.646 36.000 0.00 0.00 0.00 3.49
6128 7087 6.998673 AGGTGTCAAGAAAGTTAAGTTAGCAT 59.001 34.615 0.00 0.00 0.00 3.79
6129 7088 7.173390 AGGTGTCAAGAAAGTTAAGTTAGCATC 59.827 37.037 0.00 0.00 0.00 3.91
6130 7089 7.041372 GGTGTCAAGAAAGTTAAGTTAGCATCA 60.041 37.037 0.00 0.00 0.00 3.07
6131 7090 8.342634 GTGTCAAGAAAGTTAAGTTAGCATCAA 58.657 33.333 0.00 0.00 0.00 2.57
6132 7091 8.898761 TGTCAAGAAAGTTAAGTTAGCATCAAA 58.101 29.630 0.00 0.00 0.00 2.69
6133 7092 9.387123 GTCAAGAAAGTTAAGTTAGCATCAAAG 57.613 33.333 0.00 0.00 0.00 2.77
6134 7093 9.120538 TCAAGAAAGTTAAGTTAGCATCAAAGT 57.879 29.630 0.00 0.00 0.00 2.66
6135 7094 9.736023 CAAGAAAGTTAAGTTAGCATCAAAGTT 57.264 29.630 0.00 0.00 0.00 2.66
6141 7100 9.614792 AGTTAAGTTAGCATCAAAGTTATAGGG 57.385 33.333 0.00 0.00 0.00 3.53
6142 7101 9.609346 GTTAAGTTAGCATCAAAGTTATAGGGA 57.391 33.333 0.00 0.00 0.00 4.20
6143 7102 9.609346 TTAAGTTAGCATCAAAGTTATAGGGAC 57.391 33.333 0.00 0.00 0.00 4.46
6144 7103 6.592870 AGTTAGCATCAAAGTTATAGGGACC 58.407 40.000 0.00 0.00 0.00 4.46
6145 7104 6.387220 AGTTAGCATCAAAGTTATAGGGACCT 59.613 38.462 0.00 0.00 0.00 3.85
6146 7105 7.567622 AGTTAGCATCAAAGTTATAGGGACCTA 59.432 37.037 0.00 0.00 0.00 3.08
6147 7106 6.176014 AGCATCAAAGTTATAGGGACCTAC 57.824 41.667 0.00 0.00 0.00 3.18
6148 7107 5.905913 AGCATCAAAGTTATAGGGACCTACT 59.094 40.000 0.00 0.00 0.00 2.57
6149 7108 7.073854 AGCATCAAAGTTATAGGGACCTACTA 58.926 38.462 0.00 0.00 0.00 1.82
6150 7109 7.015389 AGCATCAAAGTTATAGGGACCTACTAC 59.985 40.741 0.00 2.35 0.00 2.73
6151 7110 7.201974 GCATCAAAGTTATAGGGACCTACTACA 60.202 40.741 0.00 0.00 0.00 2.74
6152 7111 7.651027 TCAAAGTTATAGGGACCTACTACAC 57.349 40.000 0.00 0.00 0.00 2.90
6153 7112 7.184161 TCAAAGTTATAGGGACCTACTACACA 58.816 38.462 0.00 0.00 0.00 3.72
6154 7113 7.842743 TCAAAGTTATAGGGACCTACTACACAT 59.157 37.037 0.00 0.00 0.00 3.21
6155 7114 7.598759 AAGTTATAGGGACCTACTACACATG 57.401 40.000 0.00 0.00 0.00 3.21
6156 7115 6.680540 AGTTATAGGGACCTACTACACATGT 58.319 40.000 0.00 0.00 0.00 3.21
6157 7116 7.819500 AGTTATAGGGACCTACTACACATGTA 58.180 38.462 0.00 0.00 0.00 2.29
6158 7117 8.284435 AGTTATAGGGACCTACTACACATGTAA 58.716 37.037 0.00 0.00 0.00 2.41
6159 7118 8.574737 GTTATAGGGACCTACTACACATGTAAG 58.425 40.741 0.00 1.54 0.00 2.34
6160 7119 4.944177 AGGGACCTACTACACATGTAAGT 58.056 43.478 15.21 15.21 0.00 2.24
6161 7120 4.954826 AGGGACCTACTACACATGTAAGTC 59.045 45.833 14.50 1.80 33.16 3.01
6162 7121 4.201990 GGGACCTACTACACATGTAAGTCG 60.202 50.000 14.50 9.71 34.14 4.18
6163 7122 4.349501 GACCTACTACACATGTAAGTCGC 58.650 47.826 14.50 2.69 0.00 5.19
6164 7123 3.129988 ACCTACTACACATGTAAGTCGCC 59.870 47.826 14.50 0.00 0.00 5.54
6165 7124 3.380637 CCTACTACACATGTAAGTCGCCT 59.619 47.826 14.50 0.00 0.00 5.52
6166 7125 4.577693 CCTACTACACATGTAAGTCGCCTA 59.422 45.833 14.50 0.00 0.00 3.93
6167 7126 5.066893 CCTACTACACATGTAAGTCGCCTAA 59.933 44.000 14.50 0.00 0.00 2.69
6168 7127 5.593679 ACTACACATGTAAGTCGCCTAAT 57.406 39.130 0.00 0.00 0.00 1.73
6169 7128 5.974108 ACTACACATGTAAGTCGCCTAATT 58.026 37.500 0.00 0.00 0.00 1.40
6170 7129 6.403878 ACTACACATGTAAGTCGCCTAATTT 58.596 36.000 0.00 0.00 0.00 1.82
6171 7130 6.877322 ACTACACATGTAAGTCGCCTAATTTT 59.123 34.615 0.00 0.00 0.00 1.82
6172 7131 6.569179 ACACATGTAAGTCGCCTAATTTTT 57.431 33.333 0.00 0.00 0.00 1.94
6187 7146 3.765968 TTTTTCCCCTTCCTCCTGC 57.234 52.632 0.00 0.00 0.00 4.85
6188 7147 0.114364 TTTTTCCCCTTCCTCCTGCC 59.886 55.000 0.00 0.00 0.00 4.85
6189 7148 2.137177 TTTTCCCCTTCCTCCTGCCG 62.137 60.000 0.00 0.00 0.00 5.69
6190 7149 3.864983 TTCCCCTTCCTCCTGCCGT 62.865 63.158 0.00 0.00 0.00 5.68
6191 7150 3.787001 CCCCTTCCTCCTGCCGTC 61.787 72.222 0.00 0.00 0.00 4.79
6192 7151 2.685380 CCCTTCCTCCTGCCGTCT 60.685 66.667 0.00 0.00 0.00 4.18
6193 7152 2.294078 CCCTTCCTCCTGCCGTCTT 61.294 63.158 0.00 0.00 0.00 3.01
6194 7153 1.219393 CCTTCCTCCTGCCGTCTTC 59.781 63.158 0.00 0.00 0.00 2.87
6195 7154 1.219393 CTTCCTCCTGCCGTCTTCC 59.781 63.158 0.00 0.00 0.00 3.46
6196 7155 1.229209 TTCCTCCTGCCGTCTTCCT 60.229 57.895 0.00 0.00 0.00 3.36
6197 7156 1.258445 TTCCTCCTGCCGTCTTCCTC 61.258 60.000 0.00 0.00 0.00 3.71
6198 7157 1.684049 CCTCCTGCCGTCTTCCTCT 60.684 63.158 0.00 0.00 0.00 3.69
6199 7158 1.261238 CCTCCTGCCGTCTTCCTCTT 61.261 60.000 0.00 0.00 0.00 2.85
6200 7159 0.174617 CTCCTGCCGTCTTCCTCTTC 59.825 60.000 0.00 0.00 0.00 2.87
6201 7160 0.541998 TCCTGCCGTCTTCCTCTTCA 60.542 55.000 0.00 0.00 0.00 3.02
6202 7161 0.390472 CCTGCCGTCTTCCTCTTCAC 60.390 60.000 0.00 0.00 0.00 3.18
6203 7162 0.605589 CTGCCGTCTTCCTCTTCACT 59.394 55.000 0.00 0.00 0.00 3.41
6204 7163 1.001406 CTGCCGTCTTCCTCTTCACTT 59.999 52.381 0.00 0.00 0.00 3.16
6205 7164 1.416401 TGCCGTCTTCCTCTTCACTTT 59.584 47.619 0.00 0.00 0.00 2.66
6206 7165 1.801178 GCCGTCTTCCTCTTCACTTTG 59.199 52.381 0.00 0.00 0.00 2.77
6207 7166 2.548067 GCCGTCTTCCTCTTCACTTTGA 60.548 50.000 0.00 0.00 0.00 2.69
6208 7167 3.321497 CCGTCTTCCTCTTCACTTTGAG 58.679 50.000 0.00 0.00 0.00 3.02
6209 7168 3.243907 CCGTCTTCCTCTTCACTTTGAGT 60.244 47.826 0.00 0.00 0.00 3.41
6210 7169 3.984633 CGTCTTCCTCTTCACTTTGAGTC 59.015 47.826 0.00 0.00 0.00 3.36
6211 7170 3.984633 GTCTTCCTCTTCACTTTGAGTCG 59.015 47.826 0.00 0.00 0.00 4.18
6212 7171 2.440539 TCCTCTTCACTTTGAGTCGC 57.559 50.000 0.00 0.00 0.00 5.19
6213 7172 1.000955 TCCTCTTCACTTTGAGTCGCC 59.999 52.381 0.00 0.00 0.00 5.54
6214 7173 1.433534 CTCTTCACTTTGAGTCGCCC 58.566 55.000 0.00 0.00 0.00 6.13
6215 7174 1.001406 CTCTTCACTTTGAGTCGCCCT 59.999 52.381 0.00 0.00 0.00 5.19
6216 7175 1.000955 TCTTCACTTTGAGTCGCCCTC 59.999 52.381 0.00 0.00 40.89 4.30
6217 7176 0.034896 TTCACTTTGAGTCGCCCTCC 59.965 55.000 0.31 0.00 39.65 4.30
6218 7177 1.738099 CACTTTGAGTCGCCCTCCG 60.738 63.158 0.31 0.00 39.65 4.63
6219 7178 1.906824 ACTTTGAGTCGCCCTCCGA 60.907 57.895 0.00 0.00 45.15 4.55
6230 7189 4.559063 CCTCCGATGCCAGGCCAG 62.559 72.222 9.64 0.00 0.00 4.85
6231 7190 3.790437 CTCCGATGCCAGGCCAGT 61.790 66.667 9.64 0.00 0.00 4.00
6232 7191 3.329889 TCCGATGCCAGGCCAGTT 61.330 61.111 9.64 0.00 0.00 3.16
6233 7192 1.971505 CTCCGATGCCAGGCCAGTTA 61.972 60.000 9.64 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.057386 TCATTTCATTTGCGTCAGTGCAT 60.057 39.130 0.00 0.00 45.78 3.96
12 13 4.627611 ACTCCTCATCATTTCATTTGCG 57.372 40.909 0.00 0.00 0.00 4.85
48 49 4.202151 GCCACAGACATCTTCTTTTTGGTT 60.202 41.667 0.00 0.00 32.07 3.67
61 62 1.194781 AGAAGGACCGCCACAGACAT 61.195 55.000 0.00 0.00 36.29 3.06
70 71 2.579738 GTCCCAGAGAAGGACCGC 59.420 66.667 0.00 0.00 46.85 5.68
81 82 1.678627 CTCGTCATCCACTAGTCCCAG 59.321 57.143 0.00 0.00 0.00 4.45
82 83 1.283905 TCTCGTCATCCACTAGTCCCA 59.716 52.381 0.00 0.00 0.00 4.37
83 84 2.054232 TCTCGTCATCCACTAGTCCC 57.946 55.000 0.00 0.00 0.00 4.46
84 85 3.192844 TGTTTCTCGTCATCCACTAGTCC 59.807 47.826 0.00 0.00 0.00 3.85
85 86 4.436242 TGTTTCTCGTCATCCACTAGTC 57.564 45.455 0.00 0.00 0.00 2.59
86 87 4.866508 TTGTTTCTCGTCATCCACTAGT 57.133 40.909 0.00 0.00 0.00 2.57
87 88 5.388475 CGTTTTGTTTCTCGTCATCCACTAG 60.388 44.000 0.00 0.00 0.00 2.57
88 89 4.446385 CGTTTTGTTTCTCGTCATCCACTA 59.554 41.667 0.00 0.00 0.00 2.74
89 90 3.247648 CGTTTTGTTTCTCGTCATCCACT 59.752 43.478 0.00 0.00 0.00 4.00
95 96 2.034675 GCGTACGTTTTGTTTCTCGTCA 60.035 45.455 17.90 0.00 37.66 4.35
123 124 3.347958 TTGGCTGTTGATCGTTGTTTC 57.652 42.857 0.00 0.00 0.00 2.78
126 127 2.033299 CACTTTGGCTGTTGATCGTTGT 59.967 45.455 0.00 0.00 0.00 3.32
129 130 2.146342 CTCACTTTGGCTGTTGATCGT 58.854 47.619 0.00 0.00 0.00 3.73
135 136 2.555547 GGCGCTCACTTTGGCTGTT 61.556 57.895 7.64 0.00 0.00 3.16
136 137 2.965716 AAGGCGCTCACTTTGGCTGT 62.966 55.000 7.64 0.00 38.65 4.40
142 143 3.059352 AGTAATGAAGGCGCTCACTTT 57.941 42.857 7.64 6.06 0.00 2.66
146 147 2.093711 TGCTTAGTAATGAAGGCGCTCA 60.094 45.455 7.64 4.17 0.00 4.26
177 178 6.347725 CGGGTTGTATTTTGAGACTCTGAAAG 60.348 42.308 3.68 0.00 0.00 2.62
180 181 4.566004 CGGGTTGTATTTTGAGACTCTGA 58.434 43.478 3.68 0.00 0.00 3.27
194 195 4.728102 CTGTCGCGGCGGGTTGTA 62.728 66.667 23.46 0.89 0.00 2.41
204 205 0.524392 CTAAGACTGGAGCTGTCGCG 60.524 60.000 0.00 0.00 42.32 5.87
228 229 1.080498 TCAGGAGGGGTCCAAGTATGT 59.920 52.381 0.00 0.00 0.00 2.29
266 267 1.133025 GGAAAGATGCGTCCATGTTGG 59.867 52.381 1.23 0.00 35.38 3.77
280 281 4.019950 TGACTCTGAATCAGCATGGAAAGA 60.020 41.667 5.18 0.00 36.16 2.52
304 305 2.928396 CACGAACCCCCAGACCCT 60.928 66.667 0.00 0.00 0.00 4.34
328 329 2.267961 GAACGTCCCCCGCTCATT 59.732 61.111 0.00 0.00 41.42 2.57
357 358 1.304630 ATGCACCATCTTGCCAGCA 60.305 52.632 0.00 0.00 42.25 4.41
414 415 1.012841 CTGCTCCTTCGATTGCCTTC 58.987 55.000 0.00 0.00 0.00 3.46
415 416 1.028868 GCTGCTCCTTCGATTGCCTT 61.029 55.000 0.00 0.00 0.00 4.35
429 430 0.959372 GTGCTTCCACATCAGCTGCT 60.959 55.000 9.47 0.00 41.67 4.24
439 440 6.928492 TCAAAAATAATCCTTTGTGCTTCCAC 59.072 34.615 0.00 0.00 42.40 4.02
443 444 9.211485 CTGATTCAAAAATAATCCTTTGTGCTT 57.789 29.630 0.00 0.00 34.74 3.91
457 458 9.037737 CATTGTCAAACAGTCTGATTCAAAAAT 57.962 29.630 6.91 0.00 0.00 1.82
458 459 8.249638 TCATTGTCAAACAGTCTGATTCAAAAA 58.750 29.630 6.91 0.00 0.00 1.94
459 460 7.770201 TCATTGTCAAACAGTCTGATTCAAAA 58.230 30.769 6.91 0.00 0.00 2.44
463 464 7.020010 GTGATCATTGTCAAACAGTCTGATTC 58.980 38.462 6.91 0.00 29.65 2.52
478 479 3.079578 CCTTGAGCACAGTGATCATTGT 58.920 45.455 21.86 17.37 42.81 2.71
490 491 4.785453 CTCCCGCCCCTTGAGCAC 62.785 72.222 0.00 0.00 0.00 4.40
491 492 3.916438 TACTCCCGCCCCTTGAGCA 62.916 63.158 0.00 0.00 0.00 4.26
515 516 2.357034 GGACGCCGAGTTCAGCAA 60.357 61.111 0.00 0.00 0.00 3.91
548 549 0.613853 AGATGCATGGCACCTGCTTT 60.614 50.000 2.46 2.32 43.04 3.51
582 583 6.487960 ACAGTCTCGACGACAGAATATAAAG 58.512 40.000 14.62 0.00 45.32 1.85
588 589 4.966965 ATTACAGTCTCGACGACAGAAT 57.033 40.909 14.62 9.10 45.32 2.40
596 597 3.546670 CGCAACCTTATTACAGTCTCGAC 59.453 47.826 0.00 0.00 0.00 4.20
755 758 3.700038 TCGGTTGTTTGGCCTTTTCTTTA 59.300 39.130 3.32 0.00 0.00 1.85
757 760 2.100749 CTCGGTTGTTTGGCCTTTTCTT 59.899 45.455 3.32 0.00 0.00 2.52
758 761 1.681264 CTCGGTTGTTTGGCCTTTTCT 59.319 47.619 3.32 0.00 0.00 2.52
759 762 1.679153 TCTCGGTTGTTTGGCCTTTTC 59.321 47.619 3.32 0.00 0.00 2.29
775 778 4.701956 ATGCCCTATTTTTGTTGTCTCG 57.298 40.909 0.00 0.00 0.00 4.04
809 812 6.705825 GTGATGAATTTGTTGCCCTAGTTTTT 59.294 34.615 0.00 0.00 0.00 1.94
810 813 6.183360 TGTGATGAATTTGTTGCCCTAGTTTT 60.183 34.615 0.00 0.00 0.00 2.43
811 814 5.304101 TGTGATGAATTTGTTGCCCTAGTTT 59.696 36.000 0.00 0.00 0.00 2.66
812 815 4.832266 TGTGATGAATTTGTTGCCCTAGTT 59.168 37.500 0.00 0.00 0.00 2.24
813 816 4.218417 GTGTGATGAATTTGTTGCCCTAGT 59.782 41.667 0.00 0.00 0.00 2.57
814 817 4.672542 CGTGTGATGAATTTGTTGCCCTAG 60.673 45.833 0.00 0.00 0.00 3.02
815 818 3.190327 CGTGTGATGAATTTGTTGCCCTA 59.810 43.478 0.00 0.00 0.00 3.53
816 819 2.030007 CGTGTGATGAATTTGTTGCCCT 60.030 45.455 0.00 0.00 0.00 5.19
817 820 2.030363 TCGTGTGATGAATTTGTTGCCC 60.030 45.455 0.00 0.00 0.00 5.36
818 821 3.236816 CTCGTGTGATGAATTTGTTGCC 58.763 45.455 0.00 0.00 0.00 4.52
819 822 3.236816 CCTCGTGTGATGAATTTGTTGC 58.763 45.455 0.00 0.00 0.00 4.17
860 863 0.997363 TAAGTCAGGACTCGGGGAGA 59.003 55.000 1.86 0.00 41.58 3.71
919 928 5.473504 AGATTTAGAGCCGCTTTTCTTTTGA 59.526 36.000 0.00 0.00 0.00 2.69
1127 1643 0.816825 CCCGATGTTGCTGATGAGGG 60.817 60.000 0.00 0.00 0.00 4.30
1320 1836 7.825331 TTAGATGACGATTCTCAGGTTCTAT 57.175 36.000 0.00 0.00 0.00 1.98
1391 1913 3.114065 GTTAGCTTCGGAGAACGTATGG 58.886 50.000 0.00 0.00 45.90 2.74
1401 1923 7.175990 ACAGAAAAATAAATGGTTAGCTTCGGA 59.824 33.333 0.00 0.00 0.00 4.55
1492 2014 1.527034 AGCAAGCGAAAGAAGCATCA 58.473 45.000 0.00 0.00 37.01 3.07
1536 2102 6.707290 ACTACATTCAGTATGCCAGTTTACA 58.293 36.000 0.00 0.00 37.81 2.41
1615 2181 4.809691 GCCAAACCACCAGTATCCTAAAGT 60.810 45.833 0.00 0.00 0.00 2.66
1796 2362 6.841119 TGACTGATTAATCAAACCATCAACG 58.159 36.000 18.47 6.12 36.18 4.10
2103 2671 4.952262 TCAGCATTCTAGCATGTTCAAC 57.048 40.909 4.26 0.00 36.85 3.18
2142 2710 6.664515 CGATCAGAGGTGTATCTCTTACTTC 58.335 44.000 0.00 0.00 41.76 3.01
2149 2717 1.957177 TGGCGATCAGAGGTGTATCTC 59.043 52.381 0.00 0.00 0.00 2.75
2209 2818 3.774766 TGGAAAGAAATCTCTCCCGATGA 59.225 43.478 0.43 0.00 0.00 2.92
2280 2889 2.003301 GAGGGAGATGAAGCGTTGTTC 58.997 52.381 0.00 0.00 0.00 3.18
2285 2894 1.617947 GGTGGAGGGAGATGAAGCGT 61.618 60.000 0.00 0.00 0.00 5.07
2408 3017 5.833131 TCAAGGAGTTCTTTTTGCTATTGGT 59.167 36.000 0.00 0.00 32.41 3.67
2440 3050 2.884639 ACGCAGTGCAGTTAATTCCTTT 59.115 40.909 16.83 0.00 42.51 3.11
2549 3159 2.624838 CGCAAAGAAGGGCATGGATAAT 59.375 45.455 0.00 0.00 0.00 1.28
2694 3305 5.509332 GCCCCTGGTTTCGTTTAACATTTAA 60.509 40.000 0.00 0.00 0.00 1.52
2695 3306 4.022155 GCCCCTGGTTTCGTTTAACATTTA 60.022 41.667 0.00 0.00 0.00 1.40
2706 3317 0.608035 TAGCAAAGCCCCTGGTTTCG 60.608 55.000 0.00 0.00 40.06 3.46
2718 3329 9.173939 CAAGTTTGAATCTACAAGTTAGCAAAG 57.826 33.333 0.00 0.00 0.00 2.77
2833 3444 5.346011 AGTTAGCGATACATATTGCATCACG 59.654 40.000 12.61 0.00 43.92 4.35
2931 3542 5.845103 TGTTCCTTGTTGTAATCGAGTACA 58.155 37.500 20.84 20.84 32.11 2.90
2937 3548 3.120199 CCAGCTGTTCCTTGTTGTAATCG 60.120 47.826 13.81 0.00 0.00 3.34
3410 4021 2.738846 CTGTATCATATTGGCACGCTCC 59.261 50.000 0.00 0.00 0.00 4.70
3646 4273 3.305398 AGTGCAGAAAAGGACTACTCG 57.695 47.619 0.00 0.00 38.49 4.18
4142 4772 7.472334 AGCATTTTCCATCACTCTAAATTGT 57.528 32.000 0.00 0.00 0.00 2.71
4184 4814 1.202698 ACTTCGCCATCAGGATTAGGC 60.203 52.381 0.00 0.00 43.61 3.93
4397 5027 2.383527 GCGACCTTGACTGCTTCCG 61.384 63.158 0.00 0.00 0.00 4.30
4544 5174 0.823356 GCCCTTGTGCACTCTTTCCA 60.823 55.000 19.41 0.00 0.00 3.53
4875 5505 1.294138 GTGATTTGGGACGGTCCGA 59.706 57.895 20.51 14.54 37.43 4.55
4938 5568 3.423154 CTGAAGCGGCGGTGGTTC 61.423 66.667 14.17 7.41 44.50 3.62
4994 5624 1.127567 TACCTGTTGCTGGCAGACCT 61.128 55.000 20.86 0.00 36.12 3.85
5242 5910 1.134818 ACAACGAGCAGACAACAGACA 60.135 47.619 0.00 0.00 0.00 3.41
5249 5917 1.647346 AAAACGACAACGAGCAGACA 58.353 45.000 0.00 0.00 42.66 3.41
5264 5932 4.904116 TCACGATGTTCACAGACAAAAAC 58.096 39.130 0.00 0.00 32.47 2.43
5329 5998 4.510038 ACAAAGCGAAGAAAATCTGCAT 57.490 36.364 0.00 0.00 0.00 3.96
5342 6280 3.917380 CGGCAATAATCAAAACAAAGCGA 59.083 39.130 0.00 0.00 0.00 4.93
5521 6464 1.732732 CGCTCGGTGAGACGAATTCTT 60.733 52.381 3.52 0.00 42.98 2.52
5556 6499 8.621532 TCTTTACAATAAAGAGCACAAGATGT 57.378 30.769 6.89 0.00 32.90 3.06
5568 6511 3.372822 TCCGCGCCTTCTTTACAATAAAG 59.627 43.478 0.00 2.50 0.00 1.85
5569 6512 3.336468 TCCGCGCCTTCTTTACAATAAA 58.664 40.909 0.00 0.00 0.00 1.40
5586 6535 1.005340 CATGTTTCTGCTCTCTCCGC 58.995 55.000 0.00 0.00 0.00 5.54
5595 6544 1.136147 CCGCTGAGCATGTTTCTGC 59.864 57.895 4.88 15.96 42.62 4.26
5599 6548 2.956987 GCACCGCTGAGCATGTTT 59.043 55.556 4.88 0.00 0.00 2.83
5663 6612 7.928706 TCAGAAAGTTTCAACACTTTTTGGAAA 59.071 29.630 17.65 0.00 45.23 3.13
5666 6615 7.650834 TTCAGAAAGTTTCAACACTTTTTGG 57.349 32.000 17.65 3.21 45.23 3.28
5730 6679 9.500785 TCATTCATCTGTGAAACTTATTACACA 57.499 29.630 0.00 0.00 46.67 3.72
5778 6732 6.534793 TGCGATTTTGCTTCTTTCTTTTCTTT 59.465 30.769 0.00 0.00 35.36 2.52
5779 6733 6.042143 TGCGATTTTGCTTCTTTCTTTTCTT 58.958 32.000 0.00 0.00 35.36 2.52
5780 6734 5.591099 TGCGATTTTGCTTCTTTCTTTTCT 58.409 33.333 0.00 0.00 35.36 2.52
5781 6735 5.888412 TGCGATTTTGCTTCTTTCTTTTC 57.112 34.783 0.00 0.00 35.36 2.29
5782 6736 5.812127 ACTTGCGATTTTGCTTCTTTCTTTT 59.188 32.000 0.00 0.00 35.36 2.27
5783 6737 5.351458 ACTTGCGATTTTGCTTCTTTCTTT 58.649 33.333 0.00 0.00 35.36 2.52
5786 6740 3.670523 GGACTTGCGATTTTGCTTCTTTC 59.329 43.478 0.00 0.00 35.36 2.62
5856 6814 6.918892 TGAAAAGTTTCACGAGAGAATGAA 57.081 33.333 2.32 0.00 41.88 2.57
5868 6826 5.163571 TGCAATGCTAGTGTGAAAAGTTTCA 60.164 36.000 6.82 2.32 44.31 2.69
5883 6841 7.864108 ACAAATATGACTTAGTGCAATGCTA 57.136 32.000 6.82 0.00 0.00 3.49
5947 6905 6.430000 TCGGATTGGGAAAAGAAGAACTTAAG 59.570 38.462 0.00 0.00 37.93 1.85
5949 6907 5.871834 TCGGATTGGGAAAAGAAGAACTTA 58.128 37.500 0.00 0.00 37.93 2.24
5958 6917 1.533625 TGCACTCGGATTGGGAAAAG 58.466 50.000 0.00 0.00 0.00 2.27
5983 6942 0.977395 AATAGCCTATGGGTCTCGGC 59.023 55.000 0.00 0.00 42.79 5.54
6028 6987 2.561037 CCGTTGTGCCCTCCCAAAC 61.561 63.158 0.00 0.00 0.00 2.93
6063 7022 3.252458 ACGTCAAATTTTGTACTCAGCCC 59.748 43.478 8.89 0.00 0.00 5.19
6065 7024 4.670621 CACACGTCAAATTTTGTACTCAGC 59.329 41.667 8.89 0.00 0.00 4.26
6068 7027 5.679792 GGAACACACGTCAAATTTTGTACTC 59.320 40.000 8.89 0.00 0.00 2.59
6090 7049 3.755112 TGACACCTACGAAACATTGGA 57.245 42.857 0.00 0.00 0.00 3.53
6104 7063 6.613755 TGCTAACTTAACTTTCTTGACACC 57.386 37.500 0.00 0.00 0.00 4.16
6105 7064 7.861630 TGATGCTAACTTAACTTTCTTGACAC 58.138 34.615 0.00 0.00 0.00 3.67
6106 7065 8.445275 TTGATGCTAACTTAACTTTCTTGACA 57.555 30.769 0.00 0.00 0.00 3.58
6107 7066 9.387123 CTTTGATGCTAACTTAACTTTCTTGAC 57.613 33.333 0.00 0.00 0.00 3.18
6108 7067 9.120538 ACTTTGATGCTAACTTAACTTTCTTGA 57.879 29.630 0.00 0.00 0.00 3.02
6109 7068 9.736023 AACTTTGATGCTAACTTAACTTTCTTG 57.264 29.630 0.00 0.00 0.00 3.02
6115 7074 9.614792 CCCTATAACTTTGATGCTAACTTAACT 57.385 33.333 0.00 0.00 0.00 2.24
6116 7075 9.609346 TCCCTATAACTTTGATGCTAACTTAAC 57.391 33.333 0.00 0.00 0.00 2.01
6117 7076 9.609346 GTCCCTATAACTTTGATGCTAACTTAA 57.391 33.333 0.00 0.00 0.00 1.85
6118 7077 8.208903 GGTCCCTATAACTTTGATGCTAACTTA 58.791 37.037 0.00 0.00 0.00 2.24
6119 7078 7.054751 GGTCCCTATAACTTTGATGCTAACTT 58.945 38.462 0.00 0.00 0.00 2.66
6120 7079 6.387220 AGGTCCCTATAACTTTGATGCTAACT 59.613 38.462 0.00 0.00 0.00 2.24
6121 7080 6.592870 AGGTCCCTATAACTTTGATGCTAAC 58.407 40.000 0.00 0.00 0.00 2.34
6122 7081 6.824958 AGGTCCCTATAACTTTGATGCTAA 57.175 37.500 0.00 0.00 0.00 3.09
6123 7082 7.073854 AGTAGGTCCCTATAACTTTGATGCTA 58.926 38.462 0.00 0.00 0.00 3.49
6124 7083 5.905913 AGTAGGTCCCTATAACTTTGATGCT 59.094 40.000 0.00 0.00 0.00 3.79
6125 7084 6.176014 AGTAGGTCCCTATAACTTTGATGC 57.824 41.667 0.00 0.00 0.00 3.91
6126 7085 8.142551 GTGTAGTAGGTCCCTATAACTTTGATG 58.857 40.741 0.00 0.00 0.00 3.07
6127 7086 7.842743 TGTGTAGTAGGTCCCTATAACTTTGAT 59.157 37.037 0.00 0.00 0.00 2.57
6128 7087 7.184161 TGTGTAGTAGGTCCCTATAACTTTGA 58.816 38.462 0.00 0.00 0.00 2.69
6129 7088 7.414222 TGTGTAGTAGGTCCCTATAACTTTG 57.586 40.000 0.00 0.00 0.00 2.77
6130 7089 7.622479 ACATGTGTAGTAGGTCCCTATAACTTT 59.378 37.037 0.00 0.00 0.00 2.66
6131 7090 7.130775 ACATGTGTAGTAGGTCCCTATAACTT 58.869 38.462 0.00 0.00 0.00 2.66
6132 7091 6.680540 ACATGTGTAGTAGGTCCCTATAACT 58.319 40.000 0.00 0.00 0.00 2.24
6133 7092 6.973460 ACATGTGTAGTAGGTCCCTATAAC 57.027 41.667 0.00 0.00 0.00 1.89
6134 7093 8.284435 ACTTACATGTGTAGTAGGTCCCTATAA 58.716 37.037 9.11 0.00 26.97 0.98
6135 7094 7.819500 ACTTACATGTGTAGTAGGTCCCTATA 58.180 38.462 9.11 0.00 26.97 1.31
6136 7095 6.680540 ACTTACATGTGTAGTAGGTCCCTAT 58.319 40.000 9.11 0.00 26.97 2.57
6137 7096 6.083487 ACTTACATGTGTAGTAGGTCCCTA 57.917 41.667 9.11 0.00 26.97 3.53
6138 7097 4.944177 ACTTACATGTGTAGTAGGTCCCT 58.056 43.478 9.11 0.00 26.97 4.20
6139 7098 4.201990 CGACTTACATGTGTAGTAGGTCCC 60.202 50.000 9.11 0.00 42.31 4.46
6140 7099 4.732938 GCGACTTACATGTGTAGTAGGTCC 60.733 50.000 9.11 0.00 42.31 4.46
6141 7100 4.349501 GCGACTTACATGTGTAGTAGGTC 58.650 47.826 9.11 3.17 42.05 3.85
6142 7101 3.129988 GGCGACTTACATGTGTAGTAGGT 59.870 47.826 9.11 0.00 34.91 3.08
6143 7102 3.380637 AGGCGACTTACATGTGTAGTAGG 59.619 47.826 9.11 8.45 37.44 3.18
6144 7103 4.634184 AGGCGACTTACATGTGTAGTAG 57.366 45.455 9.11 12.64 37.44 2.57
6145 7104 6.704289 ATTAGGCGACTTACATGTGTAGTA 57.296 37.500 9.11 0.00 43.67 1.82
6146 7105 5.593679 ATTAGGCGACTTACATGTGTAGT 57.406 39.130 9.11 11.72 43.67 2.73
6147 7106 6.903883 AAATTAGGCGACTTACATGTGTAG 57.096 37.500 9.11 8.38 43.67 2.74
6148 7107 7.675962 AAAAATTAGGCGACTTACATGTGTA 57.324 32.000 9.11 0.00 43.67 2.90
6149 7108 6.569179 AAAAATTAGGCGACTTACATGTGT 57.431 33.333 9.11 0.00 43.67 3.72
6169 7128 0.114364 GGCAGGAGGAAGGGGAAAAA 59.886 55.000 0.00 0.00 0.00 1.94
6170 7129 1.774300 GGCAGGAGGAAGGGGAAAA 59.226 57.895 0.00 0.00 0.00 2.29
6171 7130 2.602676 CGGCAGGAGGAAGGGGAAA 61.603 63.158 0.00 0.00 0.00 3.13
6172 7131 3.009115 CGGCAGGAGGAAGGGGAA 61.009 66.667 0.00 0.00 0.00 3.97
6173 7132 4.332543 ACGGCAGGAGGAAGGGGA 62.333 66.667 0.00 0.00 0.00 4.81
6174 7133 3.787001 GACGGCAGGAGGAAGGGG 61.787 72.222 0.00 0.00 0.00 4.79
6175 7134 2.245438 GAAGACGGCAGGAGGAAGGG 62.245 65.000 0.00 0.00 0.00 3.95
6176 7135 1.219393 GAAGACGGCAGGAGGAAGG 59.781 63.158 0.00 0.00 0.00 3.46
6177 7136 1.219393 GGAAGACGGCAGGAGGAAG 59.781 63.158 0.00 0.00 0.00 3.46
6178 7137 1.229209 AGGAAGACGGCAGGAGGAA 60.229 57.895 0.00 0.00 0.00 3.36
6179 7138 1.682684 GAGGAAGACGGCAGGAGGA 60.683 63.158 0.00 0.00 0.00 3.71
6180 7139 1.261238 AAGAGGAAGACGGCAGGAGG 61.261 60.000 0.00 0.00 0.00 4.30
6181 7140 0.174617 GAAGAGGAAGACGGCAGGAG 59.825 60.000 0.00 0.00 0.00 3.69
6182 7141 0.541998 TGAAGAGGAAGACGGCAGGA 60.542 55.000 0.00 0.00 0.00 3.86
6183 7142 0.390472 GTGAAGAGGAAGACGGCAGG 60.390 60.000 0.00 0.00 0.00 4.85
6184 7143 0.605589 AGTGAAGAGGAAGACGGCAG 59.394 55.000 0.00 0.00 0.00 4.85
6185 7144 1.048601 AAGTGAAGAGGAAGACGGCA 58.951 50.000 0.00 0.00 0.00 5.69
6186 7145 1.801178 CAAAGTGAAGAGGAAGACGGC 59.199 52.381 0.00 0.00 0.00 5.68
6187 7146 3.243907 ACTCAAAGTGAAGAGGAAGACGG 60.244 47.826 0.00 0.00 36.20 4.79
6188 7147 3.983741 ACTCAAAGTGAAGAGGAAGACG 58.016 45.455 0.00 0.00 36.20 4.18
6189 7148 3.984633 CGACTCAAAGTGAAGAGGAAGAC 59.015 47.826 0.00 0.00 36.20 3.01
6190 7149 3.553096 GCGACTCAAAGTGAAGAGGAAGA 60.553 47.826 0.00 0.00 36.20 2.87
6191 7150 2.734079 GCGACTCAAAGTGAAGAGGAAG 59.266 50.000 0.00 0.00 36.20 3.46
6192 7151 2.548067 GGCGACTCAAAGTGAAGAGGAA 60.548 50.000 0.00 0.00 36.20 3.36
6193 7152 1.000955 GGCGACTCAAAGTGAAGAGGA 59.999 52.381 0.00 0.00 36.20 3.71
6194 7153 1.433534 GGCGACTCAAAGTGAAGAGG 58.566 55.000 0.00 0.00 36.20 3.69
6195 7154 1.001406 AGGGCGACTCAAAGTGAAGAG 59.999 52.381 0.00 0.00 37.87 2.85
6196 7155 1.000955 GAGGGCGACTCAAAGTGAAGA 59.999 52.381 0.00 0.00 45.85 2.87
6197 7156 1.433534 GAGGGCGACTCAAAGTGAAG 58.566 55.000 0.00 0.00 45.85 3.02
6198 7157 3.606886 GAGGGCGACTCAAAGTGAA 57.393 52.632 0.00 0.00 45.85 3.18
6206 7165 4.593864 GGCATCGGAGGGCGACTC 62.594 72.222 0.00 0.00 45.84 3.36
6208 7167 4.899239 CTGGCATCGGAGGGCGAC 62.899 72.222 11.60 0.00 0.00 5.19
6213 7172 4.559063 CTGGCCTGGCATCGGAGG 62.559 72.222 22.05 0.00 0.00 4.30
6214 7173 1.971505 TAACTGGCCTGGCATCGGAG 61.972 60.000 22.05 9.82 0.00 4.63
6215 7174 1.992834 TAACTGGCCTGGCATCGGA 60.993 57.895 22.05 0.00 0.00 4.55
6216 7175 2.589540 TAACTGGCCTGGCATCGG 59.410 61.111 22.05 11.53 0.00 4.18


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

AutoCloner maintained by Alex Coulton.