Multiple sequence alignment - TraesCS1B01G006400

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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 TraesCS1B01G006400 chr1B 100.000 2549 0 0 1 2549 3935157 3937705 0.000000e+00 4708.0
1 TraesCS1B01G006400 chr1B 92.827 1659 78 15 902 2525 4597356 4595704 0.000000e+00 2366.0
2 TraesCS1B01G006400 chr1B 90.758 1623 114 15 934 2523 46830076 46828457 0.000000e+00 2134.0
3 TraesCS1B01G006400 chr1B 89.994 1649 128 10 906 2523 70233028 70234670 0.000000e+00 2097.0
4 TraesCS1B01G006400 chr1B 89.849 1655 128 14 905 2523 4954231 4952581 0.000000e+00 2089.0
5 TraesCS1B01G006400 chr1B 89.105 1542 128 17 902 2407 46692165 46693702 0.000000e+00 1881.0
6 TraesCS1B01G006400 chr1B 90.515 1360 104 5 1173 2510 4541140 4539784 0.000000e+00 1773.0
7 TraesCS1B01G006400 chr1B 93.185 631 27 3 902 1519 4541763 4541136 0.000000e+00 913.0
8 TraesCS1B01G006400 chr1B 88.904 739 68 10 1797 2523 4798955 4798219 0.000000e+00 898.0
9 TraesCS1B01G006400 chr1B 100.000 313 0 0 2891 3203 3938047 3938359 2.140000e-161 579.0
10 TraesCS1B01G006400 chr1B 89.447 398 31 9 1 391 4544039 4543646 2.870000e-135 492.0
11 TraesCS1B01G006400 chr1B 93.536 263 16 1 2941 3203 4517141 4516880 1.080000e-104 390.0
12 TraesCS1B01G006400 chr1B 93.281 253 3 2 437 689 4543638 4543400 8.450000e-96 361.0
13 TraesCS1B01G006400 chr1B 77.405 447 52 32 1 416 4606359 4605931 1.500000e-53 220.0
14 TraesCS1B01G006400 chr1B 95.522 67 1 2 617 683 46691138 46691202 4.370000e-19 106.0
15 TraesCS1B01G006400 chr1B 92.308 65 2 2 549 610 4955458 4955394 4.400000e-14 89.8
16 TraesCS1B01G006400 chr1B 94.444 54 1 1 367 420 4955596 4955545 7.360000e-12 82.4
17 TraesCS1B01G006400 chr1A 91.813 1649 104 11 905 2525 3532898 3531253 0.000000e+00 2268.0
18 TraesCS1B01G006400 chr1A 89.988 1638 130 15 898 2508 32545794 32547424 0.000000e+00 2085.0
19 TraesCS1B01G006400 chr1A 89.879 1650 124 15 906 2523 2943470 2945108 0.000000e+00 2082.0
20 TraesCS1B01G006400 chr1A 85.393 267 21 2 2949 3203 32547415 32547675 8.810000e-66 261.0
21 TraesCS1B01G006400 chr1A 96.377 138 5 0 688 825 188149892 188150029 8.940000e-56 228.0
22 TraesCS1B01G006400 chr1A 97.710 131 3 0 685 815 247311918 247312048 3.210000e-55 226.0
23 TraesCS1B01G006400 chr1A 94.483 145 5 3 684 828 345168948 345168807 1.500000e-53 220.0
24 TraesCS1B01G006400 chr1A 85.096 208 22 6 3 207 3009990 3010191 1.510000e-48 204.0
25 TraesCS1B01G006400 chr1A 83.412 211 11 8 503 689 3012567 3012777 1.180000e-39 174.0
26 TraesCS1B01G006400 chr1A 88.660 97 11 0 3097 3193 3015094 3015190 5.610000e-23 119.0
27 TraesCS1B01G006400 chr1A 96.491 57 1 1 2891 2946 372237740 372237796 3.400000e-15 93.5
28 TraesCS1B01G006400 chr1A 96.078 51 2 0 633 683 32545193 32545243 2.050000e-12 84.2
29 TraesCS1B01G006400 chr5D 91.078 1614 120 9 913 2511 535496805 535495201 0.000000e+00 2161.0
30 TraesCS1B01G006400 chr5D 90.085 1644 127 12 906 2523 57819772 57821405 0.000000e+00 2100.0
31 TraesCS1B01G006400 chr5D 100.000 29 0 0 151 179 20758847 20758875 2.000000e-03 54.7
32 TraesCS1B01G006400 chr6A 89.964 1654 121 16 902 2523 613493853 613495493 0.000000e+00 2093.0
33 TraesCS1B01G006400 chr6A 89.171 1653 143 17 902 2528 64167654 64166012 0.000000e+00 2028.0
34 TraesCS1B01G006400 chr6A 98.246 57 0 1 2891 2946 82092518 82092462 7.310000e-17 99.0
35 TraesCS1B01G006400 chr5B 89.957 1643 130 11 906 2523 60825751 60824119 0.000000e+00 2087.0
36 TraesCS1B01G006400 chr5B 95.556 45 2 0 619 663 505452574 505452618 4.430000e-09 73.1
37 TraesCS1B01G006400 chr3D 89.879 1650 129 23 903 2523 560024657 560023017 0.000000e+00 2087.0
38 TraesCS1B01G006400 chr1D 89.982 1637 130 14 898 2508 33984550 33986178 0.000000e+00 2084.0
39 TraesCS1B01G006400 chr1D 87.313 268 20 3 2949 3203 33986169 33986435 8.690000e-76 294.0
40 TraesCS1B01G006400 chr1D 79.310 145 20 7 549 689 33983898 33984036 3.400000e-15 93.5
41 TraesCS1B01G006400 chr1D 95.455 44 2 0 620 663 361672911 361672954 1.590000e-08 71.3
42 TraesCS1B01G006400 chr6D 89.340 1651 136 18 902 2523 51343137 51344776 0.000000e+00 2037.0
43 TraesCS1B01G006400 chr6D 88.667 1650 148 18 902 2523 51068414 51070052 0.000000e+00 1975.0
44 TraesCS1B01G006400 chr6D 84.701 268 28 6 2947 3203 53142975 53142710 4.100000e-64 255.0
45 TraesCS1B01G006400 chr6D 89.381 113 12 0 3091 3203 51075991 51076103 3.330000e-30 143.0
46 TraesCS1B01G006400 chr6B 89.024 1649 144 18 902 2523 120317264 120315626 0.000000e+00 2008.0
47 TraesCS1B01G006400 chr7B 88.788 1650 121 21 902 2523 591461850 591463463 0.000000e+00 1964.0
48 TraesCS1B01G006400 chr7B 96.324 136 4 1 680 815 605989331 605989465 4.160000e-54 222.0
49 TraesCS1B01G006400 chr7B 100.000 39 0 0 634 672 591461169 591461207 4.430000e-09 73.1
50 TraesCS1B01G006400 chr3A 95.775 142 3 3 675 815 498250644 498250783 3.210000e-55 226.0
51 TraesCS1B01G006400 chr3A 96.552 58 1 1 2891 2947 734007144 734007201 9.460000e-16 95.3
52 TraesCS1B01G006400 chr5A 97.015 134 3 1 686 819 6288396 6288528 1.160000e-54 224.0
53 TraesCS1B01G006400 chr5A 96.350 137 3 2 679 815 139514052 139513918 1.160000e-54 224.0
54 TraesCS1B01G006400 chr5A 92.763 152 10 1 682 833 154345665 154345515 5.380000e-53 219.0
55 TraesCS1B01G006400 chr2A 94.406 143 7 1 687 829 699867179 699867320 5.380000e-53 219.0
56 TraesCS1B01G006400 chr3B 98.246 57 1 0 2891 2947 236507766 236507822 2.030000e-17 100.0
57 TraesCS1B01G006400 chr3B 96.491 57 1 1 2891 2946 428093193 428093137 3.400000e-15 93.5
58 TraesCS1B01G006400 chr2D 98.276 58 0 1 2891 2947 185386163 185386106 2.030000e-17 100.0
59 TraesCS1B01G006400 chr7A 95.161 62 2 1 2891 2951 467427065 467427004 2.630000e-16 97.1
60 TraesCS1B01G006400 chr7A 100.000 39 0 0 634 672 631983986 631984024 4.430000e-09 73.1
61 TraesCS1B01G006400 chr7A 100.000 28 0 0 152 179 86053122 86053095 6.000000e-03 52.8
62 TraesCS1B01G006400 chr7A 100.000 28 0 0 152 179 86072555 86072528 6.000000e-03 52.8
63 TraesCS1B01G006400 chr4B 96.491 57 1 1 2891 2946 465734956 465735012 3.400000e-15 93.5
64 TraesCS1B01G006400 chr2B 96.491 57 1 1 2891 2946 720805087 720805143 3.400000e-15 93.5


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 TraesCS1B01G006400 chr1B 3935157 3938359 3202 False 2643.500000 4708 100.000000 1 3203 2 chr1B.!!$F2 3202
1 TraesCS1B01G006400 chr1B 4595704 4597356 1652 True 2366.000000 2366 92.827000 902 2525 1 chr1B.!!$R2 1623
2 TraesCS1B01G006400 chr1B 46828457 46830076 1619 True 2134.000000 2134 90.758000 934 2523 1 chr1B.!!$R5 1589
3 TraesCS1B01G006400 chr1B 70233028 70234670 1642 False 2097.000000 2097 89.994000 906 2523 1 chr1B.!!$F1 1617
4 TraesCS1B01G006400 chr1B 46691138 46693702 2564 False 993.500000 1881 92.313500 617 2407 2 chr1B.!!$F3 1790
5 TraesCS1B01G006400 chr1B 4798219 4798955 736 True 898.000000 898 88.904000 1797 2523 1 chr1B.!!$R4 726
6 TraesCS1B01G006400 chr1B 4539784 4544039 4255 True 884.750000 1773 91.607000 1 2510 4 chr1B.!!$R6 2509
7 TraesCS1B01G006400 chr1B 4952581 4955596 3015 True 753.733333 2089 92.200333 367 2523 3 chr1B.!!$R7 2156
8 TraesCS1B01G006400 chr1A 3531253 3532898 1645 True 2268.000000 2268 91.813000 905 2525 1 chr1A.!!$R1 1620
9 TraesCS1B01G006400 chr1A 2943470 2945108 1638 False 2082.000000 2082 89.879000 906 2523 1 chr1A.!!$F1 1617
10 TraesCS1B01G006400 chr1A 32545193 32547675 2482 False 810.066667 2085 90.486333 633 3203 3 chr1A.!!$F6 2570
11 TraesCS1B01G006400 chr5D 535495201 535496805 1604 True 2161.000000 2161 91.078000 913 2511 1 chr5D.!!$R1 1598
12 TraesCS1B01G006400 chr5D 57819772 57821405 1633 False 2100.000000 2100 90.085000 906 2523 1 chr5D.!!$F2 1617
13 TraesCS1B01G006400 chr6A 613493853 613495493 1640 False 2093.000000 2093 89.964000 902 2523 1 chr6A.!!$F1 1621
14 TraesCS1B01G006400 chr6A 64166012 64167654 1642 True 2028.000000 2028 89.171000 902 2528 1 chr6A.!!$R1 1626
15 TraesCS1B01G006400 chr5B 60824119 60825751 1632 True 2087.000000 2087 89.957000 906 2523 1 chr5B.!!$R1 1617
16 TraesCS1B01G006400 chr3D 560023017 560024657 1640 True 2087.000000 2087 89.879000 903 2523 1 chr3D.!!$R1 1620
17 TraesCS1B01G006400 chr1D 33983898 33986435 2537 False 823.833333 2084 85.535000 549 3203 3 chr1D.!!$F2 2654
18 TraesCS1B01G006400 chr6D 51343137 51344776 1639 False 2037.000000 2037 89.340000 902 2523 1 chr6D.!!$F3 1621
19 TraesCS1B01G006400 chr6D 51068414 51070052 1638 False 1975.000000 1975 88.667000 902 2523 1 chr6D.!!$F1 1621
20 TraesCS1B01G006400 chr6B 120315626 120317264 1638 True 2008.000000 2008 89.024000 902 2523 1 chr6B.!!$R1 1621
21 TraesCS1B01G006400 chr7B 591461169 591463463 2294 False 1018.550000 1964 94.394000 634 2523 2 chr7B.!!$F2 1889

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
421 429 0.108945 TACAGAGACGAGCGAGACGA 60.109 55.0 0.0 0.0 34.7 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2303 5024 0.17691 TGACCAAAGACTGTGCACGA 59.823 50.0 13.13 0.33 0.0 4.35 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
86 87 5.119588 GCATGAACATTCTTTGAATGTGTGG 59.880 40.000 21.67 14.36 40.43 4.17
149 150 9.474920 TGAAGTTGTGAACATTTATGAAATTCC 57.525 29.630 0.00 0.00 0.00 3.01
166 167 5.898630 AATTCCGACAATTTTTGAAACCG 57.101 34.783 0.00 0.00 0.00 4.44
173 174 5.231147 CGACAATTTTTGAAACCGTGAACAT 59.769 36.000 0.00 0.00 0.00 2.71
285 288 6.022163 TCCCTGTGTTTTTCGTAAACAAAA 57.978 33.333 16.22 9.63 41.23 2.44
310 313 2.795470 GTCTAGAAGGCCGAAAATAGCG 59.205 50.000 0.00 0.00 0.00 4.26
311 314 2.429610 TCTAGAAGGCCGAAAATAGCGT 59.570 45.455 0.00 0.00 0.00 5.07
320 323 1.759293 GAAAATAGCGTCCGTCGGCC 61.759 60.000 6.34 0.00 40.26 6.13
321 324 2.234913 AAAATAGCGTCCGTCGGCCT 62.235 55.000 6.34 5.32 40.26 5.19
329 332 4.096003 CCGTCGGCCTGGGACATT 62.096 66.667 0.00 0.00 38.20 2.71
330 333 2.511600 CGTCGGCCTGGGACATTC 60.512 66.667 0.00 0.00 38.20 2.67
331 334 2.124695 GTCGGCCTGGGACATTCC 60.125 66.667 0.00 0.00 38.20 3.01
332 335 2.285368 TCGGCCTGGGACATTCCT 60.285 61.111 0.00 0.00 38.20 3.36
333 336 2.190578 CGGCCTGGGACATTCCTC 59.809 66.667 0.00 0.00 38.20 3.71
334 337 2.597903 GGCCTGGGACATTCCTCC 59.402 66.667 0.00 0.00 38.20 4.30
335 338 2.003548 GGCCTGGGACATTCCTCCT 61.004 63.158 0.00 0.00 38.20 3.69
354 360 4.783621 GCTGGGCCATGTGAGCGA 62.784 66.667 6.72 0.00 0.00 4.93
355 361 2.513204 CTGGGCCATGTGAGCGAG 60.513 66.667 6.72 0.00 0.00 5.03
356 362 4.100084 TGGGCCATGTGAGCGAGG 62.100 66.667 0.00 0.00 0.00 4.63
420 428 0.720027 TTACAGAGACGAGCGAGACG 59.280 55.000 0.00 0.00 0.00 4.18
421 429 0.108945 TACAGAGACGAGCGAGACGA 60.109 55.000 0.00 0.00 34.70 4.20
422 430 0.949588 ACAGAGACGAGCGAGACGAA 60.950 55.000 0.00 0.00 34.70 3.85
423 431 0.247497 CAGAGACGAGCGAGACGAAG 60.247 60.000 0.00 0.00 34.70 3.79
462 470 5.195185 AGCTCTAGGGTTTACTACACTCTC 58.805 45.833 0.00 0.00 40.55 3.20
678 767 3.181422 ACCGGTAGTATCATCCTCATCCA 60.181 47.826 4.49 0.00 0.00 3.41
682 771 6.154534 CCGGTAGTATCATCCTCATCCATAAA 59.845 42.308 0.00 0.00 0.00 1.40
683 772 7.036220 CGGTAGTATCATCCTCATCCATAAAC 58.964 42.308 0.00 0.00 0.00 2.01
684 773 7.093727 CGGTAGTATCATCCTCATCCATAAACT 60.094 40.741 0.00 0.00 0.00 2.66
688 777 9.386122 AGTATCATCCTCATCCATAAACTTAGT 57.614 33.333 0.00 0.00 0.00 2.24
691 780 8.783660 TCATCCTCATCCATAAACTTAGTACT 57.216 34.615 0.00 0.00 0.00 2.73
692 781 8.861086 TCATCCTCATCCATAAACTTAGTACTC 58.139 37.037 0.00 0.00 0.00 2.59
693 782 7.598759 TCCTCATCCATAAACTTAGTACTCC 57.401 40.000 0.00 0.00 0.00 3.85
694 783 6.553852 TCCTCATCCATAAACTTAGTACTCCC 59.446 42.308 0.00 0.00 0.00 4.30
695 784 6.555360 CCTCATCCATAAACTTAGTACTCCCT 59.445 42.308 0.00 0.00 0.00 4.20
696 785 7.256012 CCTCATCCATAAACTTAGTACTCCCTC 60.256 44.444 0.00 0.00 0.00 4.30
697 786 6.553852 TCATCCATAAACTTAGTACTCCCTCC 59.446 42.308 0.00 0.00 0.00 4.30
698 787 4.891756 TCCATAAACTTAGTACTCCCTCCG 59.108 45.833 0.00 0.00 0.00 4.63
699 788 4.648307 CCATAAACTTAGTACTCCCTCCGT 59.352 45.833 0.00 0.00 0.00 4.69
700 789 5.128335 CCATAAACTTAGTACTCCCTCCGTT 59.872 44.000 0.00 0.00 0.00 4.44
701 790 4.797800 AAACTTAGTACTCCCTCCGTTC 57.202 45.455 0.00 0.00 0.00 3.95
702 791 2.732763 ACTTAGTACTCCCTCCGTTCC 58.267 52.381 0.00 0.00 0.00 3.62
703 792 2.042162 ACTTAGTACTCCCTCCGTTCCA 59.958 50.000 0.00 0.00 0.00 3.53
704 793 2.905415 TAGTACTCCCTCCGTTCCAA 57.095 50.000 0.00 0.00 0.00 3.53
705 794 2.019807 AGTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
706 795 2.547990 AGTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
707 796 2.910977 AGTACTCCCTCCGTTCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
708 797 4.098894 AGTACTCCCTCCGTTCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
709 798 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
710 799 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
711 800 3.329814 ACTCCCTCCGTTCCAAATTACTT 59.670 43.478 0.00 0.00 0.00 2.24
712 801 3.681593 TCCCTCCGTTCCAAATTACTTG 58.318 45.455 0.00 0.00 34.52 3.16
713 802 3.073356 TCCCTCCGTTCCAAATTACTTGT 59.927 43.478 0.00 0.00 32.65 3.16
714 803 3.439129 CCCTCCGTTCCAAATTACTTGTC 59.561 47.826 0.00 0.00 32.65 3.18
715 804 4.324267 CCTCCGTTCCAAATTACTTGTCT 58.676 43.478 0.00 0.00 32.65 3.41
716 805 4.760204 CCTCCGTTCCAAATTACTTGTCTT 59.240 41.667 0.00 0.00 32.65 3.01
717 806 5.935789 CCTCCGTTCCAAATTACTTGTCTTA 59.064 40.000 0.00 0.00 32.65 2.10
718 807 6.092259 CCTCCGTTCCAAATTACTTGTCTTAG 59.908 42.308 0.00 0.00 32.65 2.18
719 808 5.935789 TCCGTTCCAAATTACTTGTCTTAGG 59.064 40.000 0.00 0.00 32.65 2.69
720 809 5.704053 CCGTTCCAAATTACTTGTCTTAGGT 59.296 40.000 0.00 0.00 32.65 3.08
721 810 6.206048 CCGTTCCAAATTACTTGTCTTAGGTT 59.794 38.462 0.00 0.00 32.65 3.50
722 811 7.255346 CCGTTCCAAATTACTTGTCTTAGGTTT 60.255 37.037 0.00 0.00 32.65 3.27
723 812 7.589954 CGTTCCAAATTACTTGTCTTAGGTTTG 59.410 37.037 0.00 0.00 32.65 2.93
724 813 8.410912 GTTCCAAATTACTTGTCTTAGGTTTGT 58.589 33.333 0.00 0.00 32.65 2.83
725 814 8.161699 TCCAAATTACTTGTCTTAGGTTTGTC 57.838 34.615 0.00 0.00 32.65 3.18
726 815 7.996644 TCCAAATTACTTGTCTTAGGTTTGTCT 59.003 33.333 0.00 0.00 32.65 3.41
727 816 9.280174 CCAAATTACTTGTCTTAGGTTTGTCTA 57.720 33.333 0.00 0.00 32.65 2.59
733 822 7.536855 ACTTGTCTTAGGTTTGTCTAGATACG 58.463 38.462 0.00 0.00 0.00 3.06
734 823 6.446781 TGTCTTAGGTTTGTCTAGATACGG 57.553 41.667 0.00 0.00 0.00 4.02
735 824 6.182627 TGTCTTAGGTTTGTCTAGATACGGA 58.817 40.000 0.00 0.00 0.00 4.69
736 825 6.318144 TGTCTTAGGTTTGTCTAGATACGGAG 59.682 42.308 0.00 0.00 0.00 4.63
737 826 5.826737 TCTTAGGTTTGTCTAGATACGGAGG 59.173 44.000 0.00 0.00 0.00 4.30
738 827 3.978610 AGGTTTGTCTAGATACGGAGGT 58.021 45.455 0.00 0.00 0.00 3.85
739 828 5.121380 AGGTTTGTCTAGATACGGAGGTA 57.879 43.478 0.00 0.00 0.00 3.08
740 829 5.703310 AGGTTTGTCTAGATACGGAGGTAT 58.297 41.667 0.00 0.00 42.01 2.73
755 844 7.062749 ACGGAGGTATCTAGCATTAAAATGA 57.937 36.000 6.87 0.00 38.70 2.57
756 845 7.155328 ACGGAGGTATCTAGCATTAAAATGAG 58.845 38.462 6.87 0.00 38.70 2.90
757 846 7.155328 CGGAGGTATCTAGCATTAAAATGAGT 58.845 38.462 6.87 0.00 38.70 3.41
758 847 7.329717 CGGAGGTATCTAGCATTAAAATGAGTC 59.670 40.741 6.87 0.00 38.70 3.36
759 848 8.371699 GGAGGTATCTAGCATTAAAATGAGTCT 58.628 37.037 6.87 0.00 38.70 3.24
769 858 9.717942 AGCATTAAAATGAGTCTAGATACATCC 57.282 33.333 6.87 0.00 38.70 3.51
770 859 8.651588 GCATTAAAATGAGTCTAGATACATCCG 58.348 37.037 6.87 0.00 38.70 4.18
771 860 9.698309 CATTAAAATGAGTCTAGATACATCCGT 57.302 33.333 12.66 6.37 38.70 4.69
786 875 7.776618 ATACATCCGTATCTAGACAAATCCA 57.223 36.000 0.00 0.00 32.66 3.41
787 876 6.479972 ACATCCGTATCTAGACAAATCCAA 57.520 37.500 0.00 0.00 0.00 3.53
788 877 6.516718 ACATCCGTATCTAGACAAATCCAAG 58.483 40.000 0.00 0.00 0.00 3.61
789 878 6.323996 ACATCCGTATCTAGACAAATCCAAGA 59.676 38.462 0.00 0.00 0.00 3.02
790 879 6.145338 TCCGTATCTAGACAAATCCAAGAC 57.855 41.667 0.00 0.00 0.00 3.01
791 880 5.655090 TCCGTATCTAGACAAATCCAAGACA 59.345 40.000 0.00 0.00 0.00 3.41
792 881 6.153851 TCCGTATCTAGACAAATCCAAGACAA 59.846 38.462 0.00 0.00 0.00 3.18
793 882 6.477033 CCGTATCTAGACAAATCCAAGACAAG 59.523 42.308 0.00 0.00 0.00 3.16
794 883 7.036220 CGTATCTAGACAAATCCAAGACAAGT 58.964 38.462 0.00 0.00 0.00 3.16
795 884 8.188799 CGTATCTAGACAAATCCAAGACAAGTA 58.811 37.037 0.00 0.00 0.00 2.24
796 885 9.871238 GTATCTAGACAAATCCAAGACAAGTAA 57.129 33.333 0.00 0.00 0.00 2.24
798 887 9.965902 ATCTAGACAAATCCAAGACAAGTAATT 57.034 29.630 0.00 0.00 0.00 1.40
799 888 9.436957 TCTAGACAAATCCAAGACAAGTAATTC 57.563 33.333 0.00 0.00 0.00 2.17
800 889 7.133891 AGACAAATCCAAGACAAGTAATTCG 57.866 36.000 0.00 0.00 0.00 3.34
801 890 6.149474 AGACAAATCCAAGACAAGTAATTCGG 59.851 38.462 0.00 0.00 0.00 4.30
802 891 6.001460 ACAAATCCAAGACAAGTAATTCGGA 58.999 36.000 0.00 0.00 0.00 4.55
803 892 6.488683 ACAAATCCAAGACAAGTAATTCGGAA 59.511 34.615 0.00 0.00 0.00 4.30
804 893 6.496338 AATCCAAGACAAGTAATTCGGAAC 57.504 37.500 0.00 0.00 0.00 3.62
855 944 7.404980 ACTTAGTTAATTACTTCCCCTCATCCA 59.595 37.037 0.00 0.00 38.33 3.41
857 946 7.947782 AGTTAATTACTTCCCCTCATCCATA 57.052 36.000 0.00 0.00 31.29 2.74
866 955 5.796502 TCCCCTCATCCATAAACTTTCTT 57.203 39.130 0.00 0.00 0.00 2.52
869 958 5.716703 CCCCTCATCCATAAACTTTCTTGTT 59.283 40.000 0.00 0.00 0.00 2.83
870 959 6.127619 CCCCTCATCCATAAACTTTCTTGTTC 60.128 42.308 0.00 0.00 0.00 3.18
872 961 7.177392 CCCTCATCCATAAACTTTCTTGTTCTT 59.823 37.037 0.00 0.00 0.00 2.52
1143 3488 1.078988 TATCCGTGTTGGTTCCGGC 60.079 57.895 0.00 0.00 41.46 6.13
1278 3623 3.769300 ACAAAGGCCTTTCTGTGTTTTCT 59.231 39.130 28.16 0.00 31.56 2.52
1279 3624 4.222810 ACAAAGGCCTTTCTGTGTTTTCTT 59.777 37.500 28.16 0.00 31.56 2.52
1280 3625 5.178061 CAAAGGCCTTTCTGTGTTTTCTTT 58.822 37.500 28.16 0.00 0.00 2.52
1285 3630 6.551227 AGGCCTTTCTGTGTTTTCTTTATCTT 59.449 34.615 0.00 0.00 0.00 2.40
1286 3631 6.642540 GGCCTTTCTGTGTTTTCTTTATCTTG 59.357 38.462 0.00 0.00 0.00 3.02
1461 4170 1.210478 TCTGCTCTCCACCTTATTGGC 59.790 52.381 0.00 0.00 40.22 4.52
1620 4330 3.381590 AGAAGTTTGAGTTTGAGGGCAAC 59.618 43.478 0.00 0.00 32.79 4.17
1627 4337 1.072965 AGTTTGAGGGCAACAGAGGAG 59.927 52.381 0.00 0.00 39.74 3.69
1820 4539 4.773323 AGCTTTGCCTTGAGTATGTTTC 57.227 40.909 0.00 0.00 0.00 2.78
2117 4836 3.430895 CGTGTTCTTGTGCTAAATACCGT 59.569 43.478 0.00 0.00 0.00 4.83
2303 5024 1.131638 TTGGAGTGGCTGAACTGAGT 58.868 50.000 0.00 0.00 0.00 3.41
2323 5053 0.304705 CGTGCACAGTCTTTGGTCAC 59.695 55.000 18.64 0.00 32.95 3.67
2342 5072 1.559682 ACTGAGTGTTGTGGTGAGGTT 59.440 47.619 0.00 0.00 0.00 3.50
2407 5137 5.014123 ACTCCAACAACTATTCAGATTCCCA 59.986 40.000 0.00 0.00 0.00 4.37
2464 5195 5.520376 AGTGGTCTCCAAAATTTTCAGTG 57.480 39.130 0.00 0.00 34.18 3.66
2470 5201 6.421801 GGTCTCCAAAATTTTCAGTGTGAATG 59.578 38.462 0.00 0.00 36.11 2.67
2479 5210 0.240145 CAGTGTGAATGTGCTGCTGG 59.760 55.000 0.00 0.00 0.00 4.85
2497 5228 3.445096 GCTGGAGCCATTAAGTTGTTCAT 59.555 43.478 0.00 0.00 34.31 2.57
2528 5259 1.709147 GGACAAGGCTGTGCGCTATG 61.709 60.000 9.73 0.00 35.30 2.23
2529 5260 1.003355 ACAAGGCTGTGCGCTATGT 60.003 52.632 9.73 0.14 39.13 2.29
2530 5261 0.606401 ACAAGGCTGTGCGCTATGTT 60.606 50.000 9.73 0.00 35.07 2.71
2531 5262 0.523072 CAAGGCTGTGCGCTATGTTT 59.477 50.000 9.73 0.00 39.13 2.83
2532 5263 1.068333 CAAGGCTGTGCGCTATGTTTT 60.068 47.619 9.73 0.00 39.13 2.43
2533 5264 1.247567 AGGCTGTGCGCTATGTTTTT 58.752 45.000 9.73 0.00 39.13 1.94
2534 5265 2.432444 AGGCTGTGCGCTATGTTTTTA 58.568 42.857 9.73 0.00 39.13 1.52
2535 5266 2.817258 AGGCTGTGCGCTATGTTTTTAA 59.183 40.909 9.73 0.00 39.13 1.52
2536 5267 3.119849 AGGCTGTGCGCTATGTTTTTAAG 60.120 43.478 9.73 0.00 39.13 1.85
2537 5268 3.171277 GCTGTGCGCTATGTTTTTAAGG 58.829 45.455 9.73 0.00 35.14 2.69
2538 5269 3.171277 CTGTGCGCTATGTTTTTAAGGC 58.829 45.455 9.73 0.00 0.00 4.35
2539 5270 2.173964 GTGCGCTATGTTTTTAAGGCG 58.826 47.619 9.73 0.00 44.40 5.52
2540 5271 2.077627 TGCGCTATGTTTTTAAGGCGA 58.922 42.857 9.73 0.00 44.36 5.54
2541 5272 2.159626 TGCGCTATGTTTTTAAGGCGAC 60.160 45.455 9.73 0.00 44.36 5.19
2542 5273 2.689635 CGCTATGTTTTTAAGGCGACG 58.310 47.619 0.00 0.00 44.36 5.12
2543 5274 2.437626 GCTATGTTTTTAAGGCGACGC 58.562 47.619 12.43 12.43 0.00 5.19
2934 5665 4.125695 GTCGCCTTACGGACGCCT 62.126 66.667 0.00 0.00 43.89 5.52
2935 5666 3.376078 TCGCCTTACGGACGCCTT 61.376 61.111 0.00 0.00 43.89 4.35
2936 5667 2.045708 TCGCCTTACGGACGCCTTA 61.046 57.895 0.00 0.00 43.89 2.69
2937 5668 1.153784 CGCCTTACGGACGCCTTAA 60.154 57.895 0.00 0.00 38.44 1.85
2938 5669 0.737019 CGCCTTACGGACGCCTTAAA 60.737 55.000 0.00 0.00 38.44 1.52
2939 5670 1.441738 GCCTTACGGACGCCTTAAAA 58.558 50.000 0.00 0.00 0.00 1.52
2940 5671 1.805943 GCCTTACGGACGCCTTAAAAA 59.194 47.619 0.00 0.00 0.00 1.94
2941 5672 2.413239 GCCTTACGGACGCCTTAAAAAC 60.413 50.000 0.00 0.00 0.00 2.43
2942 5673 2.807392 CCTTACGGACGCCTTAAAAACA 59.193 45.455 0.00 0.00 0.00 2.83
2943 5674 3.437741 CCTTACGGACGCCTTAAAAACAT 59.562 43.478 0.00 0.00 0.00 2.71
2944 5675 4.630940 CCTTACGGACGCCTTAAAAACATA 59.369 41.667 0.00 0.00 0.00 2.29
2945 5676 5.220529 CCTTACGGACGCCTTAAAAACATAG 60.221 44.000 0.00 0.00 0.00 2.23
2946 5677 3.004862 ACGGACGCCTTAAAAACATAGG 58.995 45.455 0.00 0.00 0.00 2.57
2953 5684 3.758300 CCTTAAAAACATAGGCTGTGCG 58.242 45.455 11.50 0.00 38.39 5.34
2954 5685 3.190535 CCTTAAAAACATAGGCTGTGCGT 59.809 43.478 11.50 0.00 38.39 5.24
2955 5686 2.989422 AAAAACATAGGCTGTGCGTC 57.011 45.000 11.50 0.00 38.39 5.19
2956 5687 1.890876 AAAACATAGGCTGTGCGTCA 58.109 45.000 11.50 0.00 38.39 4.35
2957 5688 2.113860 AAACATAGGCTGTGCGTCAT 57.886 45.000 11.50 0.00 38.39 3.06
2958 5689 1.656652 AACATAGGCTGTGCGTCATC 58.343 50.000 11.50 0.00 38.39 2.92
2959 5690 0.179073 ACATAGGCTGTGCGTCATCC 60.179 55.000 11.50 0.00 36.48 3.51
2960 5691 1.068083 ATAGGCTGTGCGTCATCCG 59.932 57.895 0.00 0.00 37.41 4.18
2961 5692 1.391933 ATAGGCTGTGCGTCATCCGA 61.392 55.000 0.00 0.00 37.41 4.55
2962 5693 2.279502 TAGGCTGTGCGTCATCCGAC 62.280 60.000 0.00 0.00 37.41 4.79
2971 5702 0.595053 CGTCATCCGACCCAGATTCG 60.595 60.000 0.00 0.00 39.11 3.34
2973 5704 1.043116 TCATCCGACCCAGATTCGCT 61.043 55.000 0.00 0.00 35.06 4.93
2975 5706 0.179073 ATCCGACCCAGATTCGCTTG 60.179 55.000 0.00 0.00 35.06 4.01
3013 5744 2.561569 CCTCTACCTTTACGGCAATGG 58.438 52.381 0.00 0.00 37.45 3.16
3035 5779 6.862209 TGGTTTTCCTTTATGATGAATTCCG 58.138 36.000 2.27 0.00 41.38 4.30
3044 5788 2.948115 TGATGAATTCCGGATGGCAAT 58.052 42.857 4.15 0.00 34.14 3.56
3109 5853 3.907894 TCAACCGTAATTCTTGTTGCC 57.092 42.857 8.32 0.00 38.32 4.52
3119 5863 8.621286 CCGTAATTCTTGTTGCCTAATTTCTAT 58.379 33.333 0.00 0.00 0.00 1.98
3166 5910 4.780815 CATAAGTAGGCCACAAGATTCCA 58.219 43.478 5.01 0.00 0.00 3.53
3176 5920 3.367703 CCACAAGATTCCATGTTTCTGCC 60.368 47.826 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 5.119588 CCACACATTCAAAGAATGTTCATGC 59.880 40.000 19.52 0.00 38.69 4.06
75 76 7.678947 AAACAAAAATTGTCCACACATTCAA 57.321 28.000 0.00 0.00 44.59 2.69
86 87 6.304208 TGCGCTTTTCAAAAACAAAAATTGTC 59.696 30.769 9.73 0.00 44.59 3.18
149 150 4.559251 TGTTCACGGTTTCAAAAATTGTCG 59.441 37.500 0.00 0.00 0.00 4.35
263 266 6.707599 TTTTTGTTTACGAAAAACACAGGG 57.292 33.333 16.57 0.00 39.57 4.45
285 288 3.782656 TTTTCGGCCTTCTAGACCTTT 57.217 42.857 0.00 0.00 0.00 3.11
291 294 2.795470 GACGCTATTTTCGGCCTTCTAG 59.205 50.000 0.00 0.00 0.00 2.43
320 323 1.225704 GCCAGGAGGAATGTCCCAG 59.774 63.158 0.00 0.00 37.19 4.45
321 324 1.229951 AGCCAGGAGGAATGTCCCA 60.230 57.895 0.00 0.00 37.19 4.37
323 326 1.225704 CCAGCCAGGAGGAATGTCC 59.774 63.158 0.00 0.00 41.22 4.02
324 327 1.225704 CCCAGCCAGGAGGAATGTC 59.774 63.158 0.00 0.00 41.22 3.06
325 328 2.988839 GCCCAGCCAGGAGGAATGT 61.989 63.158 0.00 0.00 41.22 2.71
420 428 4.927422 AGCTAGTCTCGCATTTCTACTTC 58.073 43.478 0.00 0.00 0.00 3.01
421 429 4.642885 AGAGCTAGTCTCGCATTTCTACTT 59.357 41.667 0.00 0.00 46.44 2.24
422 430 4.204012 AGAGCTAGTCTCGCATTTCTACT 58.796 43.478 0.00 0.00 46.44 2.57
423 431 4.561735 AGAGCTAGTCTCGCATTTCTAC 57.438 45.455 0.00 0.00 46.44 2.59
424 432 4.757657 CCTAGAGCTAGTCTCGCATTTCTA 59.242 45.833 0.00 0.00 46.44 2.10
425 433 3.568007 CCTAGAGCTAGTCTCGCATTTCT 59.432 47.826 0.00 0.00 46.44 2.52
426 434 3.305064 CCCTAGAGCTAGTCTCGCATTTC 60.305 52.174 0.00 0.00 46.44 2.17
427 435 2.625790 CCCTAGAGCTAGTCTCGCATTT 59.374 50.000 0.00 0.00 46.44 2.32
428 436 2.235016 CCCTAGAGCTAGTCTCGCATT 58.765 52.381 0.00 0.00 46.44 3.56
429 437 1.144093 ACCCTAGAGCTAGTCTCGCAT 59.856 52.381 0.00 0.00 46.44 4.73
430 438 0.547075 ACCCTAGAGCTAGTCTCGCA 59.453 55.000 0.00 1.87 46.44 5.10
431 439 1.682740 AACCCTAGAGCTAGTCTCGC 58.317 55.000 4.02 0.00 46.44 5.03
432 440 4.453751 AGTAAACCCTAGAGCTAGTCTCG 58.546 47.826 4.02 0.00 46.44 4.04
433 441 6.260714 GTGTAGTAAACCCTAGAGCTAGTCTC 59.739 46.154 4.02 6.17 42.21 3.36
434 442 6.069498 AGTGTAGTAAACCCTAGAGCTAGTCT 60.069 42.308 4.02 0.00 39.59 3.24
435 443 6.121590 AGTGTAGTAAACCCTAGAGCTAGTC 58.878 44.000 4.02 0.00 0.00 2.59
462 470 1.150536 CCGGAGAGGAGAGGAGAGG 59.849 68.421 0.00 0.00 45.00 3.69
507 527 0.032815 GAGAATAGACCAGAGCCGCC 59.967 60.000 0.00 0.00 0.00 6.13
508 528 1.036707 AGAGAATAGACCAGAGCCGC 58.963 55.000 0.00 0.00 0.00 6.53
510 530 4.705023 GGAGATAGAGAATAGACCAGAGCC 59.295 50.000 0.00 0.00 0.00 4.70
511 531 5.570320 AGGAGATAGAGAATAGACCAGAGC 58.430 45.833 0.00 0.00 0.00 4.09
512 532 6.180472 GGAGGAGATAGAGAATAGACCAGAG 58.820 48.000 0.00 0.00 0.00 3.35
513 533 5.280266 CGGAGGAGATAGAGAATAGACCAGA 60.280 48.000 0.00 0.00 0.00 3.86
515 535 4.597940 TCGGAGGAGATAGAGAATAGACCA 59.402 45.833 0.00 0.00 0.00 4.02
678 767 5.362143 GGAACGGAGGGAGTACTAAGTTTAT 59.638 44.000 0.00 0.00 0.00 1.40
682 771 2.042162 TGGAACGGAGGGAGTACTAAGT 59.958 50.000 0.00 0.00 0.00 2.24
683 772 2.731572 TGGAACGGAGGGAGTACTAAG 58.268 52.381 0.00 0.00 0.00 2.18
684 773 2.905415 TGGAACGGAGGGAGTACTAA 57.095 50.000 0.00 0.00 0.00 2.24
686 775 2.019807 TTTGGAACGGAGGGAGTACT 57.980 50.000 0.00 0.00 0.00 2.73
687 776 3.345508 AATTTGGAACGGAGGGAGTAC 57.654 47.619 0.00 0.00 0.00 2.73
688 777 4.098894 AGTAATTTGGAACGGAGGGAGTA 58.901 43.478 0.00 0.00 0.00 2.59
689 778 2.910977 AGTAATTTGGAACGGAGGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
690 779 3.629142 AGTAATTTGGAACGGAGGGAG 57.371 47.619 0.00 0.00 0.00 4.30
691 780 3.073356 ACAAGTAATTTGGAACGGAGGGA 59.927 43.478 0.00 0.00 41.25 4.20
692 781 3.418047 ACAAGTAATTTGGAACGGAGGG 58.582 45.455 0.00 0.00 41.25 4.30
693 782 4.324267 AGACAAGTAATTTGGAACGGAGG 58.676 43.478 0.00 0.00 41.25 4.30
694 783 5.941948 AAGACAAGTAATTTGGAACGGAG 57.058 39.130 0.00 0.00 41.25 4.63
695 784 5.935789 CCTAAGACAAGTAATTTGGAACGGA 59.064 40.000 0.00 0.00 41.25 4.69
696 785 5.704053 ACCTAAGACAAGTAATTTGGAACGG 59.296 40.000 5.55 0.00 41.25 4.44
697 786 6.796705 ACCTAAGACAAGTAATTTGGAACG 57.203 37.500 5.55 0.00 41.25 3.95
698 787 8.410912 ACAAACCTAAGACAAGTAATTTGGAAC 58.589 33.333 0.00 0.00 41.25 3.62
699 788 8.528044 ACAAACCTAAGACAAGTAATTTGGAA 57.472 30.769 0.00 0.00 41.25 3.53
700 789 7.996644 AGACAAACCTAAGACAAGTAATTTGGA 59.003 33.333 0.00 0.00 41.25 3.53
701 790 8.166422 AGACAAACCTAAGACAAGTAATTTGG 57.834 34.615 0.00 0.00 41.25 3.28
707 796 8.671921 CGTATCTAGACAAACCTAAGACAAGTA 58.328 37.037 0.00 0.00 0.00 2.24
708 797 7.362747 CCGTATCTAGACAAACCTAAGACAAGT 60.363 40.741 0.00 0.00 0.00 3.16
709 798 6.973474 CCGTATCTAGACAAACCTAAGACAAG 59.027 42.308 0.00 0.00 0.00 3.16
710 799 6.660521 TCCGTATCTAGACAAACCTAAGACAA 59.339 38.462 0.00 0.00 0.00 3.18
711 800 6.182627 TCCGTATCTAGACAAACCTAAGACA 58.817 40.000 0.00 0.00 0.00 3.41
712 801 6.238703 CCTCCGTATCTAGACAAACCTAAGAC 60.239 46.154 0.00 0.00 0.00 3.01
713 802 5.826737 CCTCCGTATCTAGACAAACCTAAGA 59.173 44.000 0.00 0.00 0.00 2.10
714 803 5.593502 ACCTCCGTATCTAGACAAACCTAAG 59.406 44.000 0.00 0.00 0.00 2.18
715 804 5.513233 ACCTCCGTATCTAGACAAACCTAA 58.487 41.667 0.00 0.00 0.00 2.69
716 805 5.121380 ACCTCCGTATCTAGACAAACCTA 57.879 43.478 0.00 0.00 0.00 3.08
717 806 3.978610 ACCTCCGTATCTAGACAAACCT 58.021 45.455 0.00 0.00 0.00 3.50
718 807 6.011476 GATACCTCCGTATCTAGACAAACC 57.989 45.833 0.00 0.00 45.11 3.27
729 818 8.812972 TCATTTTAATGCTAGATACCTCCGTAT 58.187 33.333 0.00 0.00 35.82 3.06
730 819 8.185506 TCATTTTAATGCTAGATACCTCCGTA 57.814 34.615 0.00 0.00 36.36 4.02
731 820 7.062749 TCATTTTAATGCTAGATACCTCCGT 57.937 36.000 0.00 0.00 36.36 4.69
732 821 7.155328 ACTCATTTTAATGCTAGATACCTCCG 58.845 38.462 0.00 0.00 36.36 4.63
733 822 8.371699 AGACTCATTTTAATGCTAGATACCTCC 58.628 37.037 0.00 0.00 36.36 4.30
743 832 9.717942 GGATGTATCTAGACTCATTTTAATGCT 57.282 33.333 11.25 0.00 36.36 3.79
744 833 8.651588 CGGATGTATCTAGACTCATTTTAATGC 58.348 37.037 11.25 0.00 36.36 3.56
745 834 9.698309 ACGGATGTATCTAGACTCATTTTAATG 57.302 33.333 11.25 0.00 37.75 1.90
762 851 7.776618 TGGATTTGTCTAGATACGGATGTAT 57.223 36.000 0.00 0.00 43.97 2.29
763 852 7.504574 TCTTGGATTTGTCTAGATACGGATGTA 59.495 37.037 0.00 0.00 34.45 2.29
764 853 6.323996 TCTTGGATTTGTCTAGATACGGATGT 59.676 38.462 0.00 0.00 0.00 3.06
765 854 6.642950 GTCTTGGATTTGTCTAGATACGGATG 59.357 42.308 0.00 0.00 0.00 3.51
766 855 6.323996 TGTCTTGGATTTGTCTAGATACGGAT 59.676 38.462 0.00 0.00 0.00 4.18
767 856 5.655090 TGTCTTGGATTTGTCTAGATACGGA 59.345 40.000 0.00 0.00 0.00 4.69
768 857 5.902681 TGTCTTGGATTTGTCTAGATACGG 58.097 41.667 0.00 0.00 0.00 4.02
769 858 7.036220 ACTTGTCTTGGATTTGTCTAGATACG 58.964 38.462 0.00 0.00 0.00 3.06
770 859 9.871238 TTACTTGTCTTGGATTTGTCTAGATAC 57.129 33.333 0.00 0.00 0.00 2.24
772 861 9.965902 AATTACTTGTCTTGGATTTGTCTAGAT 57.034 29.630 0.00 0.00 0.00 1.98
773 862 9.436957 GAATTACTTGTCTTGGATTTGTCTAGA 57.563 33.333 0.00 0.00 0.00 2.43
774 863 8.383619 CGAATTACTTGTCTTGGATTTGTCTAG 58.616 37.037 0.00 0.00 0.00 2.43
775 864 7.333423 CCGAATTACTTGTCTTGGATTTGTCTA 59.667 37.037 0.00 0.00 0.00 2.59
776 865 6.149474 CCGAATTACTTGTCTTGGATTTGTCT 59.851 38.462 0.00 0.00 0.00 3.41
777 866 6.148811 TCCGAATTACTTGTCTTGGATTTGTC 59.851 38.462 0.00 0.00 0.00 3.18
778 867 6.001460 TCCGAATTACTTGTCTTGGATTTGT 58.999 36.000 0.00 0.00 0.00 2.83
779 868 6.494893 TCCGAATTACTTGTCTTGGATTTG 57.505 37.500 0.00 0.00 0.00 2.32
780 869 6.348213 CGTTCCGAATTACTTGTCTTGGATTT 60.348 38.462 0.00 0.00 0.00 2.17
781 870 5.121768 CGTTCCGAATTACTTGTCTTGGATT 59.878 40.000 0.00 0.00 0.00 3.01
782 871 4.630069 CGTTCCGAATTACTTGTCTTGGAT 59.370 41.667 0.00 0.00 0.00 3.41
783 872 3.991773 CGTTCCGAATTACTTGTCTTGGA 59.008 43.478 0.00 0.00 0.00 3.53
784 873 3.124636 CCGTTCCGAATTACTTGTCTTGG 59.875 47.826 0.00 0.00 0.00 3.61
785 874 3.991773 TCCGTTCCGAATTACTTGTCTTG 59.008 43.478 0.00 0.00 0.00 3.02
786 875 4.243270 CTCCGTTCCGAATTACTTGTCTT 58.757 43.478 0.00 0.00 0.00 3.01
787 876 3.368116 CCTCCGTTCCGAATTACTTGTCT 60.368 47.826 0.00 0.00 0.00 3.41
788 877 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
789 878 2.354403 CCCTCCGTTCCGAATTACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
790 879 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
791 880 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
792 881 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
793 882 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
794 883 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
795 884 1.856629 TACTCCCTCCGTTCCGAATT 58.143 50.000 0.00 0.00 0.00 2.17
796 885 2.083628 ATACTCCCTCCGTTCCGAAT 57.916 50.000 0.00 0.00 0.00 3.34
797 886 2.734755 TATACTCCCTCCGTTCCGAA 57.265 50.000 0.00 0.00 0.00 4.30
798 887 2.965671 ATATACTCCCTCCGTTCCGA 57.034 50.000 0.00 0.00 0.00 4.55
799 888 4.267536 TGATATATACTCCCTCCGTTCCG 58.732 47.826 0.00 0.00 0.00 4.30
800 889 5.302313 GGATGATATATACTCCCTCCGTTCC 59.698 48.000 2.77 0.00 0.00 3.62
801 890 5.892119 TGGATGATATATACTCCCTCCGTTC 59.108 44.000 9.50 0.00 0.00 3.95
802 891 5.838955 TGGATGATATATACTCCCTCCGTT 58.161 41.667 9.50 0.00 0.00 4.44
803 892 5.467668 TGGATGATATATACTCCCTCCGT 57.532 43.478 9.50 0.00 0.00 4.69
804 893 8.361139 GTTTATGGATGATATATACTCCCTCCG 58.639 40.741 9.50 0.00 0.00 4.63
805 894 9.440761 AGTTTATGGATGATATATACTCCCTCC 57.559 37.037 9.50 0.46 0.00 4.30
857 946 8.522830 TGAATCTGAACAAGAACAAGAAAGTTT 58.477 29.630 0.00 0.00 38.79 2.66
866 955 6.395426 AATTGCTGAATCTGAACAAGAACA 57.605 33.333 0.00 0.00 38.79 3.18
869 958 8.097038 ACTACTAATTGCTGAATCTGAACAAGA 58.903 33.333 0.00 0.00 39.94 3.02
870 959 8.261492 ACTACTAATTGCTGAATCTGAACAAG 57.739 34.615 0.00 0.00 0.00 3.16
872 961 9.890629 ATTACTACTAATTGCTGAATCTGAACA 57.109 29.630 0.00 0.00 0.00 3.18
1143 3488 1.930371 GCTTTTGTAGCGGTGCAAAGG 60.930 52.381 27.41 27.41 39.15 3.11
1278 3623 3.002791 CAGCGAGGAACAGCAAGATAAA 58.997 45.455 0.00 0.00 35.48 1.40
1279 3624 2.621338 CAGCGAGGAACAGCAAGATAA 58.379 47.619 0.00 0.00 35.48 1.75
1280 3625 1.134699 CCAGCGAGGAACAGCAAGATA 60.135 52.381 0.00 0.00 41.22 1.98
1285 3630 1.597854 CAACCAGCGAGGAACAGCA 60.598 57.895 5.19 0.00 41.22 4.41
1286 3631 1.301716 TCAACCAGCGAGGAACAGC 60.302 57.895 5.19 0.00 41.22 4.40
1620 4330 8.106462 TCTGTAAGACTATCATATCCTCCTCTG 58.894 40.741 0.00 0.00 38.67 3.35
1820 4539 4.641541 TCATGTCATTGTCATTTAGGGCAG 59.358 41.667 0.00 0.00 0.00 4.85
2303 5024 0.176910 TGACCAAAGACTGTGCACGA 59.823 50.000 13.13 0.33 0.00 4.35
2323 5053 2.332063 AACCTCACCACAACACTCAG 57.668 50.000 0.00 0.00 0.00 3.35
2407 5137 4.202264 CGCCAAGACCAATACTCTTCCTAT 60.202 45.833 0.00 0.00 0.00 2.57
2417 5147 2.171659 TCAATAGGCGCCAAGACCAATA 59.828 45.455 31.54 10.00 0.00 1.90
2479 5210 4.622740 GCACAATGAACAACTTAATGGCTC 59.377 41.667 0.00 0.00 0.00 4.70
2497 5228 1.273048 GCCTTGTCCAATGATGCACAA 59.727 47.619 0.00 0.00 0.00 3.33
2922 5653 4.673534 ATGTTTTTAAGGCGTCCGTAAG 57.326 40.909 4.97 0.00 30.10 2.34
2923 5654 4.630940 CCTATGTTTTTAAGGCGTCCGTAA 59.369 41.667 0.00 0.00 0.00 3.18
2924 5655 4.183101 CCTATGTTTTTAAGGCGTCCGTA 58.817 43.478 0.00 0.00 0.00 4.02
2925 5656 3.004862 CCTATGTTTTTAAGGCGTCCGT 58.995 45.455 0.00 0.00 0.00 4.69
2926 5657 2.223180 GCCTATGTTTTTAAGGCGTCCG 60.223 50.000 0.00 0.00 45.82 4.79
2927 5658 3.416119 GCCTATGTTTTTAAGGCGTCC 57.584 47.619 0.00 0.00 45.82 4.79
2932 5663 3.190535 ACGCACAGCCTATGTTTTTAAGG 59.809 43.478 0.00 0.00 41.41 2.69
2933 5664 4.083537 TGACGCACAGCCTATGTTTTTAAG 60.084 41.667 0.00 0.00 41.41 1.85
2934 5665 3.815962 TGACGCACAGCCTATGTTTTTAA 59.184 39.130 0.00 0.00 41.41 1.52
2935 5666 3.403968 TGACGCACAGCCTATGTTTTTA 58.596 40.909 0.00 0.00 41.41 1.52
2936 5667 2.226330 TGACGCACAGCCTATGTTTTT 58.774 42.857 0.00 0.00 41.41 1.94
2937 5668 1.890876 TGACGCACAGCCTATGTTTT 58.109 45.000 0.00 0.00 41.41 2.43
2938 5669 2.009774 GATGACGCACAGCCTATGTTT 58.990 47.619 0.00 0.00 41.41 2.83
2939 5670 1.656652 GATGACGCACAGCCTATGTT 58.343 50.000 0.00 0.00 41.41 2.71
2940 5671 3.369381 GATGACGCACAGCCTATGT 57.631 52.632 0.00 0.00 45.43 2.29
2946 5677 3.188786 GGTCGGATGACGCACAGC 61.189 66.667 0.00 0.00 46.49 4.40
2952 5683 0.595053 CGAATCTGGGTCGGATGACG 60.595 60.000 0.00 0.00 46.49 4.35
2953 5684 0.876342 GCGAATCTGGGTCGGATGAC 60.876 60.000 0.00 0.00 44.72 3.06
2954 5685 1.043116 AGCGAATCTGGGTCGGATGA 61.043 55.000 0.00 0.00 38.93 2.92
2955 5686 0.179073 AAGCGAATCTGGGTCGGATG 60.179 55.000 0.00 0.00 38.93 3.51
2956 5687 0.179073 CAAGCGAATCTGGGTCGGAT 60.179 55.000 0.00 0.00 38.93 4.18
2957 5688 1.218047 CAAGCGAATCTGGGTCGGA 59.782 57.895 0.00 0.00 38.93 4.55
2958 5689 1.079127 ACAAGCGAATCTGGGTCGG 60.079 57.895 0.00 0.00 38.93 4.79
2959 5690 0.108615 AGACAAGCGAATCTGGGTCG 60.109 55.000 0.00 0.00 41.46 4.79
2960 5691 1.363744 CAGACAAGCGAATCTGGGTC 58.636 55.000 6.32 0.00 38.97 4.46
2961 5692 3.540211 CAGACAAGCGAATCTGGGT 57.460 52.632 6.32 0.00 38.97 4.51
2971 5702 2.860136 GCAACAAAAAGTCCAGACAAGC 59.140 45.455 0.00 0.00 0.00 4.01
2973 5704 2.167487 GGGCAACAAAAAGTCCAGACAA 59.833 45.455 0.00 0.00 39.74 3.18
2975 5706 2.031870 AGGGCAACAAAAAGTCCAGAC 58.968 47.619 0.00 0.00 39.74 3.51
2980 5711 3.487372 AGGTAGAGGGCAACAAAAAGTC 58.513 45.455 0.00 0.00 39.74 3.01
3013 5744 7.095695 TCCGGAATTCATCATAAAGGAAAAC 57.904 36.000 0.00 0.00 0.00 2.43
3103 5847 6.313519 ACAGAGGATAGAAATTAGGCAACA 57.686 37.500 0.00 0.00 41.41 3.33
3109 5853 6.334102 ACGGCTACAGAGGATAGAAATTAG 57.666 41.667 0.00 0.00 0.00 1.73
3119 5863 1.250328 TTCGAAACGGCTACAGAGGA 58.750 50.000 0.00 0.00 0.00 3.71
3166 5910 4.722193 CCTCCACGGCAGAAACAT 57.278 55.556 0.00 0.00 0.00 2.71
3176 5920 1.964223 AGGACATATAGTGCCTCCACG 59.036 52.381 0.00 0.00 46.62 4.94


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

AutoCloner maintained by Alex Coulton.