Multiple sequence alignment - TraesCS2A01G513200

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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 TraesCS2A01G513200 chr2A 100.000 2520 0 0 1 2520 738042571 738045090 0.000000e+00 4654.0
1 TraesCS2A01G513200 chr2A 92.188 192 12 3 830 1020 738114573 738114762 4.130000e-68 268.0
2 TraesCS2A01G513200 chr2A 87.413 143 12 3 1119 1255 738202644 738202786 2.590000e-35 159.0
3 TraesCS2A01G513200 chr2A 82.581 155 18 7 1118 1266 738144002 738144153 7.320000e-26 128.0
4 TraesCS2A01G513200 chr2D 91.228 1140 56 24 861 1979 606517604 606518720 0.000000e+00 1511.0
5 TraesCS2A01G513200 chr2D 86.522 690 51 24 881 1549 606596643 606597311 0.000000e+00 721.0
6 TraesCS2A01G513200 chr2D 84.100 522 56 19 830 1326 606554704 606555223 1.750000e-131 479.0
7 TraesCS2A01G513200 chr2D 83.269 520 45 15 161 640 606516745 606517262 8.270000e-120 440.0
8 TraesCS2A01G513200 chr2D 97.479 238 5 1 2284 2520 606521189 606521426 3.020000e-109 405.0
9 TraesCS2A01G513200 chr2D 96.324 136 5 0 2134 2269 45540255 45540120 9.070000e-55 224.0
10 TraesCS2A01G513200 chr2D 96.324 136 5 0 2134 2269 391461632 391461497 9.070000e-55 224.0
11 TraesCS2A01G513200 chr2D 85.065 154 17 5 1118 1265 606637289 606637442 4.340000e-33 152.0
12 TraesCS2A01G513200 chr2D 87.407 135 11 5 1118 1246 606514392 606514526 1.560000e-32 150.0
13 TraesCS2A01G513200 chr2D 83.871 155 16 4 1118 1266 606625647 606625798 3.380000e-29 139.0
14 TraesCS2A01G513200 chr2D 95.522 67 2 1 1 66 606516285 606516351 3.430000e-19 106.0
15 TraesCS2A01G513200 chr2B 86.079 783 60 24 843 1596 737694074 737694836 0.000000e+00 797.0
16 TraesCS2A01G513200 chr2B 83.738 701 57 36 901 1552 737688679 737689371 5.960000e-171 610.0
17 TraesCS2A01G513200 chr2B 82.368 397 46 13 1 374 737687661 737688056 8.690000e-85 324.0
18 TraesCS2A01G513200 chr2B 96.324 136 5 0 2134 2269 296085577 296085712 9.070000e-55 224.0
19 TraesCS2A01G513200 chr2B 89.080 174 19 0 643 816 737688483 737688656 1.520000e-52 217.0
20 TraesCS2A01G513200 chr2B 92.105 152 12 0 2134 2285 333041496 333041647 5.460000e-52 215.0
21 TraesCS2A01G513200 chr2B 85.621 153 16 5 1119 1265 738176031 738176183 3.360000e-34 156.0
22 TraesCS2A01G513200 chr2B 90.000 50 4 1 2436 2485 737815879 737815831 2.090000e-06 63.9
23 TraesCS2A01G513200 chr7D 96.324 136 5 0 2134 2269 600764284 600764419 9.070000e-55 224.0
24 TraesCS2A01G513200 chr5B 96.324 136 5 0 2134 2269 655620549 655620684 9.070000e-55 224.0
25 TraesCS2A01G513200 chr5B 95.652 138 6 0 2133 2270 107904762 107904899 3.260000e-54 222.0
26 TraesCS2A01G513200 chr1D 96.324 136 5 0 2134 2269 12318524 12318389 9.070000e-55 224.0
27 TraesCS2A01G513200 chr1B 96.324 136 5 0 2134 2269 17384721 17384586 9.070000e-55 224.0


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 TraesCS2A01G513200 chr2A 738042571 738045090 2519 False 4654.000000 4654 100.000 1 2520 1 chr2A.!!$F1 2519
1 TraesCS2A01G513200 chr2D 606596643 606597311 668 False 721.000000 721 86.522 881 1549 1 chr2D.!!$F2 668
2 TraesCS2A01G513200 chr2D 606514392 606521426 7034 False 522.400000 1511 90.981 1 2520 5 chr2D.!!$F5 2519
3 TraesCS2A01G513200 chr2D 606554704 606555223 519 False 479.000000 479 84.100 830 1326 1 chr2D.!!$F1 496
4 TraesCS2A01G513200 chr2B 737694074 737694836 762 False 797.000000 797 86.079 843 1596 1 chr2B.!!$F3 753
5 TraesCS2A01G513200 chr2B 737687661 737689371 1710 False 383.666667 610 85.062 1 1552 3 chr2B.!!$F5 1551

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
886 3308 0.179181 CATGTTGCTCGTCACCATGC 60.179 55.0 5.44 0.0 38.47 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2280 7114 0.112412 ACAACAGGATTTTCCGGCCT 59.888 50.0 0.0 0.0 42.75 5.19 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
66 1961 7.553504 AACCAAGCTTATAAGGTTTTGGATT 57.446 32.000 29.43 20.32 43.61 3.01
68 1963 8.658840 ACCAAGCTTATAAGGTTTTGGATTTA 57.341 30.769 29.43 0.00 43.61 1.40
69 1964 8.528643 ACCAAGCTTATAAGGTTTTGGATTTAC 58.471 33.333 29.43 6.21 43.61 2.01
71 1966 9.788960 CAAGCTTATAAGGTTTTGGATTTACTC 57.211 33.333 23.82 0.00 43.61 2.59
107 2114 6.491714 AGTCTAAGCAATGGTCATGATAGT 57.508 37.500 0.00 0.00 0.00 2.12
126 2133 8.388656 TGATAGTTGTTAGTAAAATCCTCCCT 57.611 34.615 0.00 0.00 0.00 4.20
137 2144 1.302907 ATCCTCCCTTCTTGCCACAT 58.697 50.000 0.00 0.00 0.00 3.21
154 2161 5.820423 TGCCACATAATAAACTTATGCGACT 59.180 36.000 5.17 0.00 36.19 4.18
158 2165 5.763204 ACATAATAAACTTATGCGACTGGGG 59.237 40.000 5.17 0.00 36.19 4.96
209 2403 2.030007 CACATGCGGACACCTGAAAAAT 60.030 45.455 0.00 0.00 0.00 1.82
221 2415 8.576442 GGACACCTGAAAAATCAAATCTTAGAA 58.424 33.333 0.00 0.00 0.00 2.10
291 2498 1.609501 TGCAACTCCCTAGCTCGGT 60.610 57.895 3.23 0.00 0.00 4.69
293 2500 1.889530 GCAACTCCCTAGCTCGGTGT 61.890 60.000 3.23 2.78 0.00 4.16
314 2521 2.282816 CCATCCCCGCCAACAACA 60.283 61.111 0.00 0.00 0.00 3.33
374 2581 0.254178 CTAGTTGCCACATCTGCCCT 59.746 55.000 0.00 0.00 0.00 5.19
376 2583 2.048603 GTTGCCACATCTGCCCTCC 61.049 63.158 0.00 0.00 0.00 4.30
377 2584 3.286694 TTGCCACATCTGCCCTCCC 62.287 63.158 0.00 0.00 0.00 4.30
385 2622 2.905676 ATCTGCCCTCCCTCCCTGTC 62.906 65.000 0.00 0.00 0.00 3.51
444 2681 2.361610 CCCCGCATGCTTGTTCCT 60.362 61.111 17.13 0.00 0.00 3.36
459 2696 1.540267 GTTCCTGTCAGCGAGTAGACA 59.460 52.381 0.00 0.00 42.06 3.41
461 2698 1.745653 TCCTGTCAGCGAGTAGACATG 59.254 52.381 0.00 0.00 43.18 3.21
464 2701 1.745653 TGTCAGCGAGTAGACATGGAG 59.254 52.381 0.00 0.00 39.65 3.86
497 2734 0.246910 GAGGTTCCGGTTGAGAGGTC 59.753 60.000 0.00 0.00 0.00 3.85
510 2747 4.110036 TGAGAGGTCGACATGTATGTTG 57.890 45.455 18.91 5.99 41.95 3.33
594 2834 6.317391 GGGAAGAGATGACTATGGTTTTTCTG 59.683 42.308 0.00 0.00 0.00 3.02
599 2839 2.378547 TGACTATGGTTTTTCTGGGCCT 59.621 45.455 4.53 0.00 0.00 5.19
616 2857 1.065126 GCCTGTGAATTAGGGTGAGCT 60.065 52.381 0.00 0.00 35.80 4.09
626 2867 0.846693 AGGGTGAGCTGAAAGTTGGT 59.153 50.000 0.00 0.00 35.30 3.67
640 2881 4.618920 AAGTTGGTAACGATGACCTCTT 57.381 40.909 0.00 0.59 37.88 2.85
641 2882 4.618920 AGTTGGTAACGATGACCTCTTT 57.381 40.909 0.00 0.00 37.88 2.52
650 3016 7.594386 GGTAACGATGACCTCTTTTATACTAGC 59.406 40.741 0.00 0.00 33.86 3.42
776 3191 0.460987 CTGGCCGACTCATCTCCAAC 60.461 60.000 0.00 0.00 0.00 3.77
778 3193 0.250513 GGCCGACTCATCTCCAACTT 59.749 55.000 0.00 0.00 0.00 2.66
811 3226 4.496336 CCAGCTGTAGCAGGGGCC 62.496 72.222 13.81 0.00 43.11 5.80
812 3227 4.845580 CAGCTGTAGCAGGGGCCG 62.846 72.222 5.25 0.00 45.16 6.13
814 3229 4.840005 GCTGTAGCAGGGGCCGTC 62.840 72.222 0.00 0.00 42.56 4.79
815 3230 3.390521 CTGTAGCAGGGGCCGTCA 61.391 66.667 0.00 0.00 42.56 4.35
816 3231 3.665675 CTGTAGCAGGGGCCGTCAC 62.666 68.421 0.00 0.00 42.56 3.67
817 3232 3.702048 GTAGCAGGGGCCGTCACA 61.702 66.667 0.00 0.00 42.56 3.58
818 3233 2.687200 TAGCAGGGGCCGTCACAT 60.687 61.111 0.00 0.00 42.56 3.21
819 3234 2.731571 TAGCAGGGGCCGTCACATC 61.732 63.158 0.00 0.00 42.56 3.06
821 3236 3.402681 CAGGGGCCGTCACATCCT 61.403 66.667 0.00 0.00 0.00 3.24
822 3237 2.610859 AGGGGCCGTCACATCCTT 60.611 61.111 0.00 0.00 0.00 3.36
823 3238 2.124695 GGGGCCGTCACATCCTTC 60.125 66.667 0.00 0.00 0.00 3.46
824 3239 2.124695 GGGCCGTCACATCCTTCC 60.125 66.667 0.00 0.00 0.00 3.46
825 3240 2.124695 GGCCGTCACATCCTTCCC 60.125 66.667 0.00 0.00 0.00 3.97
826 3241 2.124695 GCCGTCACATCCTTCCCC 60.125 66.667 0.00 0.00 0.00 4.81
827 3242 2.186903 CCGTCACATCCTTCCCCG 59.813 66.667 0.00 0.00 0.00 5.73
828 3243 2.355986 CCGTCACATCCTTCCCCGA 61.356 63.158 0.00 0.00 0.00 5.14
829 3244 1.153628 CGTCACATCCTTCCCCGAC 60.154 63.158 0.00 0.00 0.00 4.79
830 3245 1.221021 GTCACATCCTTCCCCGACC 59.779 63.158 0.00 0.00 0.00 4.79
831 3246 2.186903 CACATCCTTCCCCGACCG 59.813 66.667 0.00 0.00 0.00 4.79
832 3247 3.081409 ACATCCTTCCCCGACCGG 61.081 66.667 0.00 0.00 0.00 5.28
833 3248 3.081409 CATCCTTCCCCGACCGGT 61.081 66.667 6.92 6.92 0.00 5.28
834 3249 2.762875 ATCCTTCCCCGACCGGTC 60.763 66.667 25.28 25.28 0.00 4.79
837 3252 3.315949 CTTCCCCGACCGGTCCAA 61.316 66.667 28.52 14.60 0.00 3.53
838 3253 3.600898 CTTCCCCGACCGGTCCAAC 62.601 68.421 28.52 4.82 0.00 3.77
886 3308 0.179181 CATGTTGCTCGTCACCATGC 60.179 55.000 5.44 0.00 38.47 4.06
927 3350 0.381909 GCGCGCGCAACTAGAATAAG 60.382 55.000 46.11 10.98 41.49 1.73
1022 3481 2.100252 CCATTCACCAGCCATCACATTC 59.900 50.000 0.00 0.00 0.00 2.67
1023 3482 2.885135 TTCACCAGCCATCACATTCT 57.115 45.000 0.00 0.00 0.00 2.40
1030 3494 3.306502 CCAGCCATCACATTCTTTTGCTT 60.307 43.478 0.00 0.00 0.00 3.91
1035 3499 1.952990 TCACATTCTTTTGCTTGCCGA 59.047 42.857 0.00 0.00 0.00 5.54
1111 3578 3.493303 GGGATCCACCTCCTGGCC 61.493 72.222 15.23 0.00 40.39 5.36
1426 3926 8.161699 TGTAGCATCGATCTGTAAATACACTA 57.838 34.615 0.00 0.00 31.93 2.74
1427 3927 8.074370 TGTAGCATCGATCTGTAAATACACTAC 58.926 37.037 0.00 0.00 31.93 2.73
1428 3928 7.039313 AGCATCGATCTGTAAATACACTACA 57.961 36.000 0.00 0.00 31.93 2.74
1429 3929 6.918569 AGCATCGATCTGTAAATACACTACAC 59.081 38.462 0.00 0.00 31.93 2.90
1430 3930 6.144080 GCATCGATCTGTAAATACACTACACC 59.856 42.308 0.00 0.00 31.93 4.16
1431 3931 6.762702 TCGATCTGTAAATACACTACACCA 57.237 37.500 0.00 0.00 31.93 4.17
1432 3932 6.792326 TCGATCTGTAAATACACTACACCAG 58.208 40.000 0.00 0.00 31.93 4.00
1433 3933 6.376299 TCGATCTGTAAATACACTACACCAGT 59.624 38.462 0.00 0.00 38.32 4.00
1464 3967 3.101437 TGTTAGGACCGGCTGATTCTTA 58.899 45.455 0.00 0.00 0.00 2.10
1465 3968 3.516300 TGTTAGGACCGGCTGATTCTTAA 59.484 43.478 0.00 0.00 0.00 1.85
1517 4030 7.118390 AGCATCTCAAATACAAGTGTACAGTTC 59.882 37.037 13.12 0.00 32.72 3.01
1528 4041 5.871396 AGTGTACAGTTCTTCTTCAGGAA 57.129 39.130 0.00 0.00 0.00 3.36
1545 4058 8.263640 TCTTCAGGAAATTCATTTGTTTTTCCA 58.736 29.630 19.48 6.46 46.18 3.53
1550 4063 4.703379 ATTCATTTGTTTTTCCAGGCCA 57.297 36.364 5.01 0.00 0.00 5.36
1551 4064 4.494091 TTCATTTGTTTTTCCAGGCCAA 57.506 36.364 5.01 0.00 0.00 4.52
1552 4065 4.494091 TCATTTGTTTTTCCAGGCCAAA 57.506 36.364 5.01 0.00 0.00 3.28
1553 4066 4.450053 TCATTTGTTTTTCCAGGCCAAAG 58.550 39.130 5.01 0.00 0.00 2.77
1554 4067 4.163078 TCATTTGTTTTTCCAGGCCAAAGA 59.837 37.500 5.01 0.00 0.00 2.52
1555 4068 3.535280 TTGTTTTTCCAGGCCAAAGAC 57.465 42.857 5.01 2.98 0.00 3.01
1577 4090 0.040067 GAACTGGCCAGAAGCAAACG 60.040 55.000 39.19 10.78 46.50 3.60
1755 4270 0.674895 GAGTCAGCCACACCACCATC 60.675 60.000 0.00 0.00 0.00 3.51
1873 4388 1.298667 CAACCGGGGTCCTCGAAAT 59.701 57.895 14.38 0.00 0.00 2.17
1946 4461 2.301870 TCTGACACGGTGAAGGCTAAAT 59.698 45.455 16.29 0.00 0.00 1.40
1954 4469 4.250464 CGGTGAAGGCTAAATGTTGACTA 58.750 43.478 0.00 0.00 0.00 2.59
1979 4494 3.199442 TGGGTCTCCTCCACTATTCAA 57.801 47.619 0.00 0.00 0.00 2.69
1980 4495 2.838202 TGGGTCTCCTCCACTATTCAAC 59.162 50.000 0.00 0.00 0.00 3.18
1981 4496 2.170817 GGGTCTCCTCCACTATTCAACC 59.829 54.545 0.00 0.00 0.00 3.77
1982 4497 2.170817 GGTCTCCTCCACTATTCAACCC 59.829 54.545 0.00 0.00 0.00 4.11
1983 4498 2.108168 TCTCCTCCACTATTCAACCCG 58.892 52.381 0.00 0.00 0.00 5.28
1984 4499 2.108168 CTCCTCCACTATTCAACCCGA 58.892 52.381 0.00 0.00 0.00 5.14
1986 4501 3.112263 TCCTCCACTATTCAACCCGATT 58.888 45.455 0.00 0.00 0.00 3.34
1989 4504 4.444876 CCTCCACTATTCAACCCGATTCAT 60.445 45.833 0.00 0.00 0.00 2.57
1990 4505 4.703897 TCCACTATTCAACCCGATTCATC 58.296 43.478 0.00 0.00 0.00 2.92
1991 4506 3.815401 CCACTATTCAACCCGATTCATCC 59.185 47.826 0.00 0.00 0.00 3.51
1992 4507 3.494626 CACTATTCAACCCGATTCATCCG 59.505 47.826 0.00 0.00 0.00 4.18
1993 4508 2.710096 ATTCAACCCGATTCATCCGT 57.290 45.000 0.00 0.00 0.00 4.69
1994 4509 2.483014 TTCAACCCGATTCATCCGTT 57.517 45.000 0.00 0.00 0.00 4.44
1995 4510 1.732941 TCAACCCGATTCATCCGTTG 58.267 50.000 7.60 7.60 36.05 4.10
1996 4511 1.276705 TCAACCCGATTCATCCGTTGA 59.723 47.619 10.81 10.81 38.85 3.18
2019 4705 4.453480 TGAAACAAGATGGTCCTCCTTT 57.547 40.909 0.00 0.00 34.23 3.11
2020 4706 4.803452 TGAAACAAGATGGTCCTCCTTTT 58.197 39.130 0.00 0.00 34.23 2.27
2021 4707 5.208121 TGAAACAAGATGGTCCTCCTTTTT 58.792 37.500 0.00 0.00 34.23 1.94
2022 4708 5.301805 TGAAACAAGATGGTCCTCCTTTTTC 59.698 40.000 14.88 14.88 34.23 2.29
2023 4709 4.731313 ACAAGATGGTCCTCCTTTTTCT 57.269 40.909 0.00 0.00 34.23 2.52
2026 4712 6.794534 ACAAGATGGTCCTCCTTTTTCTATT 58.205 36.000 0.00 0.00 34.23 1.73
2029 4715 4.216411 TGGTCCTCCTTTTTCTATTCGG 57.784 45.455 0.00 0.00 34.23 4.30
2030 4716 3.841845 TGGTCCTCCTTTTTCTATTCGGA 59.158 43.478 0.00 0.00 34.23 4.55
2031 4717 4.287585 TGGTCCTCCTTTTTCTATTCGGAA 59.712 41.667 0.00 0.00 34.23 4.30
2032 4718 5.045140 TGGTCCTCCTTTTTCTATTCGGAAT 60.045 40.000 8.49 8.49 34.23 3.01
2033 4719 5.297029 GGTCCTCCTTTTTCTATTCGGAATG 59.703 44.000 13.37 4.04 0.00 2.67
2035 4721 6.768381 GTCCTCCTTTTTCTATTCGGAATGAT 59.232 38.462 13.37 0.00 0.00 2.45
2036 4722 6.767902 TCCTCCTTTTTCTATTCGGAATGATG 59.232 38.462 13.37 4.10 0.00 3.07
2037 4723 6.016777 CCTCCTTTTTCTATTCGGAATGATGG 60.017 42.308 13.37 6.09 0.00 3.51
2039 4725 5.010012 CCTTTTTCTATTCGGAATGATGGGG 59.990 44.000 13.37 3.73 0.00 4.96
2040 4726 4.788925 TTTCTATTCGGAATGATGGGGT 57.211 40.909 13.37 0.00 0.00 4.95
2041 4727 3.769739 TCTATTCGGAATGATGGGGTG 57.230 47.619 13.37 0.00 0.00 4.61
2042 4728 3.313791 TCTATTCGGAATGATGGGGTGA 58.686 45.455 13.37 0.00 0.00 4.02
2044 4730 1.285280 TTCGGAATGATGGGGTGACT 58.715 50.000 0.00 0.00 0.00 3.41
2046 4732 1.209504 TCGGAATGATGGGGTGACTTC 59.790 52.381 0.00 0.00 0.00 3.01
2047 4733 1.210478 CGGAATGATGGGGTGACTTCT 59.790 52.381 0.00 0.00 0.00 2.85
2048 4734 2.356125 CGGAATGATGGGGTGACTTCTT 60.356 50.000 0.00 0.00 0.00 2.52
2049 4735 3.118408 CGGAATGATGGGGTGACTTCTTA 60.118 47.826 0.00 0.00 0.00 2.10
2051 4737 3.567478 ATGATGGGGTGACTTCTTAGC 57.433 47.619 0.00 0.00 0.00 3.09
2052 4738 2.265367 TGATGGGGTGACTTCTTAGCA 58.735 47.619 0.00 0.00 0.00 3.49
2054 4740 3.266772 TGATGGGGTGACTTCTTAGCATT 59.733 43.478 0.00 0.00 0.00 3.56
2055 4741 3.350219 TGGGGTGACTTCTTAGCATTC 57.650 47.619 0.00 0.00 0.00 2.67
2056 4742 2.912956 TGGGGTGACTTCTTAGCATTCT 59.087 45.455 0.00 0.00 0.00 2.40
2057 4743 3.330701 TGGGGTGACTTCTTAGCATTCTT 59.669 43.478 0.00 0.00 0.00 2.52
2058 4744 4.534500 TGGGGTGACTTCTTAGCATTCTTA 59.466 41.667 0.00 0.00 0.00 2.10
2059 4745 5.013704 TGGGGTGACTTCTTAGCATTCTTAA 59.986 40.000 0.00 0.00 0.00 1.85
2060 4746 5.586643 GGGGTGACTTCTTAGCATTCTTAAG 59.413 44.000 0.00 0.00 0.00 1.85
2061 4747 6.407202 GGGTGACTTCTTAGCATTCTTAAGA 58.593 40.000 0.00 0.00 0.00 2.10
2062 4748 6.879458 GGGTGACTTCTTAGCATTCTTAAGAA 59.121 38.462 19.83 19.83 37.45 2.52
2063 4749 7.554476 GGGTGACTTCTTAGCATTCTTAAGAAT 59.446 37.037 22.43 22.43 44.93 2.40
2064 4750 8.951243 GGTGACTTCTTAGCATTCTTAAGAATT 58.049 33.333 24.94 15.72 42.41 2.17
2092 6926 8.308207 AGTCTTACAATACTTCACCTTCTTCTC 58.692 37.037 0.00 0.00 0.00 2.87
2111 6945 3.074412 CTCAAACTATCAAACAGGCGGT 58.926 45.455 0.00 0.00 0.00 5.68
2130 6964 1.963515 GTTGGATGCTGTGAAAACCCT 59.036 47.619 0.00 0.00 0.00 4.34
2131 6965 1.619654 TGGATGCTGTGAAAACCCTG 58.380 50.000 0.00 0.00 0.00 4.45
2132 6966 1.144708 TGGATGCTGTGAAAACCCTGA 59.855 47.619 0.00 0.00 0.00 3.86
2133 6967 1.815003 GGATGCTGTGAAAACCCTGAG 59.185 52.381 0.00 0.00 0.00 3.35
2134 6968 1.815003 GATGCTGTGAAAACCCTGAGG 59.185 52.381 0.00 0.00 40.04 3.86
2135 6969 0.843309 TGCTGTGAAAACCCTGAGGA 59.157 50.000 0.00 0.00 36.73 3.71
2136 6970 1.425066 TGCTGTGAAAACCCTGAGGAT 59.575 47.619 0.00 0.00 36.73 3.24
2137 6971 1.815003 GCTGTGAAAACCCTGAGGATG 59.185 52.381 0.00 0.00 36.73 3.51
2138 6972 2.815589 GCTGTGAAAACCCTGAGGATGT 60.816 50.000 0.00 0.00 36.73 3.06
2139 6973 3.559171 GCTGTGAAAACCCTGAGGATGTA 60.559 47.826 0.00 0.00 36.73 2.29
2140 6974 4.651778 CTGTGAAAACCCTGAGGATGTAA 58.348 43.478 0.00 0.00 36.73 2.41
2141 6975 4.651778 TGTGAAAACCCTGAGGATGTAAG 58.348 43.478 0.00 0.00 36.73 2.34
2142 6976 4.104102 TGTGAAAACCCTGAGGATGTAAGT 59.896 41.667 0.00 0.00 36.73 2.24
2143 6977 4.455877 GTGAAAACCCTGAGGATGTAAGTG 59.544 45.833 0.00 0.00 36.73 3.16
2144 6978 3.721087 AAACCCTGAGGATGTAAGTGG 57.279 47.619 0.00 0.00 36.73 4.00
2145 6979 0.912486 ACCCTGAGGATGTAAGTGGC 59.088 55.000 0.00 0.00 36.73 5.01
2146 6980 0.911769 CCCTGAGGATGTAAGTGGCA 59.088 55.000 0.00 0.00 33.47 4.92
2147 6981 1.281867 CCCTGAGGATGTAAGTGGCAA 59.718 52.381 0.00 0.00 33.47 4.52
2148 6982 2.290896 CCCTGAGGATGTAAGTGGCAAA 60.291 50.000 0.00 0.00 33.47 3.68
2149 6983 3.624777 CCTGAGGATGTAAGTGGCAAAT 58.375 45.455 0.00 0.00 0.00 2.32
2150 6984 4.385199 CCCTGAGGATGTAAGTGGCAAATA 60.385 45.833 0.00 0.00 33.47 1.40
2151 6985 5.192927 CCTGAGGATGTAAGTGGCAAATAA 58.807 41.667 0.00 0.00 0.00 1.40
2152 6986 5.652014 CCTGAGGATGTAAGTGGCAAATAAA 59.348 40.000 0.00 0.00 0.00 1.40
2153 6987 6.322201 CCTGAGGATGTAAGTGGCAAATAAAT 59.678 38.462 0.00 0.00 0.00 1.40
2154 6988 7.099266 TGAGGATGTAAGTGGCAAATAAATG 57.901 36.000 0.00 0.00 0.00 2.32
2155 6989 6.889177 TGAGGATGTAAGTGGCAAATAAATGA 59.111 34.615 0.00 0.00 0.00 2.57
2156 6990 7.100458 AGGATGTAAGTGGCAAATAAATGAC 57.900 36.000 0.00 0.00 0.00 3.06
2157 6991 5.971202 GGATGTAAGTGGCAAATAAATGACG 59.029 40.000 0.00 0.00 0.00 4.35
2158 6992 5.950758 TGTAAGTGGCAAATAAATGACGT 57.049 34.783 0.00 0.00 0.00 4.34
2159 6993 5.933790 TGTAAGTGGCAAATAAATGACGTC 58.066 37.500 9.11 9.11 0.00 4.34
2160 6994 4.434713 AAGTGGCAAATAAATGACGTCC 57.565 40.909 14.12 0.00 0.00 4.79
2161 6995 2.418628 AGTGGCAAATAAATGACGTCCG 59.581 45.455 14.12 0.00 0.00 4.79
2162 6996 1.131504 TGGCAAATAAATGACGTCCGC 59.868 47.619 14.12 2.76 0.00 5.54
2163 6997 1.131504 GGCAAATAAATGACGTCCGCA 59.868 47.619 14.12 0.00 0.00 5.69
2164 6998 2.414824 GGCAAATAAATGACGTCCGCAA 60.415 45.455 14.12 0.00 0.00 4.85
2165 6999 3.434637 GCAAATAAATGACGTCCGCAAT 58.565 40.909 14.12 0.00 0.00 3.56
2166 7000 3.857093 GCAAATAAATGACGTCCGCAATT 59.143 39.130 14.12 2.87 0.00 2.32
2167 7001 4.027702 GCAAATAAATGACGTCCGCAATTC 60.028 41.667 14.12 0.00 0.00 2.17
2168 7002 3.963383 ATAAATGACGTCCGCAATTCC 57.037 42.857 14.12 0.00 0.00 3.01
2169 7003 0.446222 AAATGACGTCCGCAATTCCG 59.554 50.000 14.12 0.00 0.00 4.30
2170 7004 0.672401 AATGACGTCCGCAATTCCGT 60.672 50.000 14.12 0.00 36.04 4.69
2171 7005 0.672401 ATGACGTCCGCAATTCCGTT 60.672 50.000 14.12 0.00 33.03 4.44
2172 7006 0.881159 TGACGTCCGCAATTCCGTTT 60.881 50.000 14.12 0.00 33.03 3.60
2173 7007 1.070038 GACGTCCGCAATTCCGTTTA 58.930 50.000 3.51 0.00 33.03 2.01
2174 7008 1.060122 GACGTCCGCAATTCCGTTTAG 59.940 52.381 3.51 0.00 33.03 1.85
2175 7009 1.073177 CGTCCGCAATTCCGTTTAGT 58.927 50.000 0.00 0.00 0.00 2.24
2176 7010 1.461897 CGTCCGCAATTCCGTTTAGTT 59.538 47.619 0.00 0.00 0.00 2.24
2177 7011 2.667481 CGTCCGCAATTCCGTTTAGTTA 59.333 45.455 0.00 0.00 0.00 2.24
2178 7012 3.241868 CGTCCGCAATTCCGTTTAGTTAG 60.242 47.826 0.00 0.00 0.00 2.34
2179 7013 3.681417 GTCCGCAATTCCGTTTAGTTAGT 59.319 43.478 0.00 0.00 0.00 2.24
2180 7014 4.152938 GTCCGCAATTCCGTTTAGTTAGTT 59.847 41.667 0.00 0.00 0.00 2.24
2181 7015 4.756135 TCCGCAATTCCGTTTAGTTAGTTT 59.244 37.500 0.00 0.00 0.00 2.66
2182 7016 5.239087 TCCGCAATTCCGTTTAGTTAGTTTT 59.761 36.000 0.00 0.00 0.00 2.43
2183 7017 5.916320 CCGCAATTCCGTTTAGTTAGTTTTT 59.084 36.000 0.00 0.00 0.00 1.94
2184 7018 6.129300 CCGCAATTCCGTTTAGTTAGTTTTTG 60.129 38.462 0.00 0.00 0.00 2.44
2185 7019 6.633634 CGCAATTCCGTTTAGTTAGTTTTTGA 59.366 34.615 0.00 0.00 0.00 2.69
2186 7020 7.325097 CGCAATTCCGTTTAGTTAGTTTTTGAT 59.675 33.333 0.00 0.00 0.00 2.57
2187 7021 9.615295 GCAATTCCGTTTAGTTAGTTTTTGATA 57.385 29.630 0.00 0.00 0.00 2.15
2189 7023 9.836076 AATTCCGTTTAGTTAGTTTTTGATAGC 57.164 29.630 0.00 0.00 0.00 2.97
2190 7024 8.611654 TTCCGTTTAGTTAGTTTTTGATAGCT 57.388 30.769 0.00 0.00 0.00 3.32
2191 7025 8.611654 TCCGTTTAGTTAGTTTTTGATAGCTT 57.388 30.769 0.00 0.00 0.00 3.74
2192 7026 8.500773 TCCGTTTAGTTAGTTTTTGATAGCTTG 58.499 33.333 0.00 0.00 0.00 4.01
2193 7027 8.500773 CCGTTTAGTTAGTTTTTGATAGCTTGA 58.499 33.333 0.00 0.00 0.00 3.02
2207 7041 9.466497 TTTGATAGCTTGATAGTTCATTTTCCT 57.534 29.630 0.00 0.00 0.00 3.36
2208 7042 8.668510 TGATAGCTTGATAGTTCATTTTCCTC 57.331 34.615 0.00 0.00 0.00 3.71
2209 7043 8.267183 TGATAGCTTGATAGTTCATTTTCCTCA 58.733 33.333 0.00 0.00 0.00 3.86
2210 7044 9.113838 GATAGCTTGATAGTTCATTTTCCTCAA 57.886 33.333 0.00 0.00 0.00 3.02
2211 7045 7.765695 AGCTTGATAGTTCATTTTCCTCAAA 57.234 32.000 0.00 0.00 0.00 2.69
2212 7046 7.597386 AGCTTGATAGTTCATTTTCCTCAAAC 58.403 34.615 0.00 0.00 0.00 2.93
2213 7047 7.231317 AGCTTGATAGTTCATTTTCCTCAAACA 59.769 33.333 0.00 0.00 0.00 2.83
2214 7048 7.867403 GCTTGATAGTTCATTTTCCTCAAACAA 59.133 33.333 0.00 0.00 0.00 2.83
2215 7049 9.748708 CTTGATAGTTCATTTTCCTCAAACAAA 57.251 29.630 0.00 0.00 0.00 2.83
2216 7050 9.528018 TTGATAGTTCATTTTCCTCAAACAAAC 57.472 29.630 0.00 0.00 0.00 2.93
2217 7051 8.690884 TGATAGTTCATTTTCCTCAAACAAACA 58.309 29.630 0.00 0.00 29.91 2.83
2218 7052 9.528018 GATAGTTCATTTTCCTCAAACAAACAA 57.472 29.630 0.00 0.00 29.91 2.83
2219 7053 9.883142 ATAGTTCATTTTCCTCAAACAAACAAA 57.117 25.926 0.00 0.00 29.91 2.83
2220 7054 8.614469 AGTTCATTTTCCTCAAACAAACAAAA 57.386 26.923 0.00 0.00 29.91 2.44
2221 7055 9.061435 AGTTCATTTTCCTCAAACAAACAAAAA 57.939 25.926 0.00 0.00 29.91 1.94
2262 7096 9.529325 TCATATCATAAGTGGACTTTAAACGAG 57.471 33.333 0.00 0.00 37.40 4.18
2263 7097 9.529325 CATATCATAAGTGGACTTTAAACGAGA 57.471 33.333 0.00 0.00 37.40 4.04
2267 7101 9.932207 TCATAAGTGGACTTTAAACGAGATTAA 57.068 29.630 0.00 0.00 37.40 1.40
2271 7105 9.893305 AAGTGGACTTTAAACGAGATTAAATTG 57.107 29.630 0.00 0.00 35.02 2.32
2272 7106 9.280174 AGTGGACTTTAAACGAGATTAAATTGA 57.720 29.630 0.00 0.00 35.02 2.57
2273 7107 9.326339 GTGGACTTTAAACGAGATTAAATTGAC 57.674 33.333 0.00 0.00 35.02 3.18
2274 7108 9.058174 TGGACTTTAAACGAGATTAAATTGACA 57.942 29.630 0.00 0.00 35.02 3.58
2278 7112 9.503427 CTTTAAACGAGATTAAATTGACATCCC 57.497 33.333 0.00 0.00 35.02 3.85
2279 7113 8.801882 TTAAACGAGATTAAATTGACATCCCT 57.198 30.769 0.00 0.00 0.00 4.20
2280 7114 9.893634 TTAAACGAGATTAAATTGACATCCCTA 57.106 29.630 0.00 0.00 0.00 3.53
2281 7115 8.438676 AAACGAGATTAAATTGACATCCCTAG 57.561 34.615 0.00 0.00 0.00 3.02
2282 7116 6.525629 ACGAGATTAAATTGACATCCCTAGG 58.474 40.000 0.06 0.06 0.00 3.02
2283 7117 5.409826 CGAGATTAAATTGACATCCCTAGGC 59.590 44.000 2.05 0.00 0.00 3.93
2284 7118 5.635120 AGATTAAATTGACATCCCTAGGCC 58.365 41.667 2.05 0.00 0.00 5.19
2310 7144 5.880054 AAATCCTGTTGTCCTATGAAACG 57.120 39.130 0.00 0.00 0.00 3.60
2320 7154 6.902224 TGTCCTATGAAACGACATAACATG 57.098 37.500 0.00 0.00 33.26 3.21
2360 7194 1.871772 GCATGGAGCCGCATCATAC 59.128 57.895 0.00 0.00 37.23 2.39
2387 7221 2.100216 CGCCAGTACGCAAATGCC 59.900 61.111 0.00 0.00 37.91 4.40
2510 7345 7.268586 TCTAGAGTTCAATTCACTTCCTATGC 58.731 38.462 0.00 0.00 0.00 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 2084 8.264347 TCATGACCATTGCTTAGACTACAATTA 58.736 33.333 0.00 0.00 31.82 1.40
91 2098 6.683974 ACTAACAACTATCATGACCATTGC 57.316 37.500 0.00 0.00 0.00 3.56
99 2106 9.057089 GGGAGGATTTTACTAACAACTATCATG 57.943 37.037 0.00 0.00 0.00 3.07
107 2114 6.433093 GCAAGAAGGGAGGATTTTACTAACAA 59.567 38.462 0.00 0.00 0.00 2.83
126 2133 7.066404 TCGCATAAGTTTATTATGTGGCAAGAA 59.934 33.333 16.76 0.00 41.02 2.52
137 2144 4.131596 GCCCCAGTCGCATAAGTTTATTA 58.868 43.478 0.00 0.00 0.00 0.98
154 2161 1.974343 GTTTGGTGCATACGCCCCA 60.974 57.895 0.00 0.00 44.75 4.96
158 2165 0.878416 TTCAGGTTTGGTGCATACGC 59.122 50.000 0.00 0.00 39.24 4.42
209 2403 5.122239 CGATGGTTGCTGTTCTAAGATTTGA 59.878 40.000 0.00 0.00 0.00 2.69
221 2415 1.303317 GGGGAACGATGGTTGCTGT 60.303 57.895 11.62 0.00 43.30 4.40
283 2490 1.676678 GGATGGAGCACACCGAGCTA 61.677 60.000 0.00 0.00 43.58 3.32
293 2500 4.424711 GTTGGCGGGGATGGAGCA 62.425 66.667 0.00 0.00 0.00 4.26
314 2521 0.889186 GACTGCCACCGAACATGGTT 60.889 55.000 0.00 0.00 41.38 3.67
393 2630 1.071019 CAGTCGTCGATGAACGTGGG 61.071 60.000 9.35 0.00 43.08 4.61
432 2669 0.167470 CGCTGACAGGAACAAGCATG 59.833 55.000 4.26 0.00 0.00 4.06
441 2678 1.745653 CATGTCTACTCGCTGACAGGA 59.254 52.381 4.26 0.00 44.55 3.86
444 2681 1.745653 CTCCATGTCTACTCGCTGACA 59.254 52.381 0.00 0.00 45.56 3.58
459 2696 1.687612 CTCTGCCCACAACCTCCAT 59.312 57.895 0.00 0.00 0.00 3.41
461 2698 2.190488 CTCCTCTGCCCACAACCTCC 62.190 65.000 0.00 0.00 0.00 4.30
464 2701 2.069165 AACCTCCTCTGCCCACAACC 62.069 60.000 0.00 0.00 0.00 3.77
497 2734 3.233578 GCACCAAACAACATACATGTCG 58.766 45.455 0.00 0.00 40.80 4.35
567 2807 5.779241 AAACCATAGTCATCTCTTCCCAA 57.221 39.130 0.00 0.00 0.00 4.12
594 2834 0.623723 TCACCCTAATTCACAGGCCC 59.376 55.000 0.00 0.00 0.00 5.80
599 2839 4.202461 ACTTTCAGCTCACCCTAATTCACA 60.202 41.667 0.00 0.00 0.00 3.58
616 2857 4.039973 AGAGGTCATCGTTACCAACTTTCA 59.960 41.667 6.41 0.00 39.64 2.69
626 2867 7.504911 AGGCTAGTATAAAAGAGGTCATCGTTA 59.495 37.037 0.00 0.00 0.00 3.18
733 3102 3.851098 GACTAGAGAAGTCGGCAACATT 58.149 45.455 0.00 0.00 45.05 2.71
769 3184 4.344865 GCCGGGCCAAGTTGGAGA 62.345 66.667 26.52 0.00 40.96 3.71
799 3214 3.702048 GTGACGGCCCCTGCTACA 61.702 66.667 0.00 0.00 37.74 2.74
807 3222 2.124695 GGAAGGATGTGACGGCCC 60.125 66.667 0.00 0.00 0.00 5.80
808 3223 2.124695 GGGAAGGATGTGACGGCC 60.125 66.667 0.00 0.00 0.00 6.13
809 3224 2.124695 GGGGAAGGATGTGACGGC 60.125 66.667 0.00 0.00 0.00 5.68
810 3225 2.186903 CGGGGAAGGATGTGACGG 59.813 66.667 0.00 0.00 0.00 4.79
811 3226 1.153628 GTCGGGGAAGGATGTGACG 60.154 63.158 0.00 0.00 0.00 4.35
812 3227 1.221021 GGTCGGGGAAGGATGTGAC 59.779 63.158 0.00 0.00 0.00 3.67
813 3228 2.355986 CGGTCGGGGAAGGATGTGA 61.356 63.158 0.00 0.00 0.00 3.58
814 3229 2.186903 CGGTCGGGGAAGGATGTG 59.813 66.667 0.00 0.00 0.00 3.21
815 3230 3.081409 CCGGTCGGGGAAGGATGT 61.081 66.667 0.74 0.00 0.00 3.06
816 3231 3.081409 ACCGGTCGGGGAAGGATG 61.081 66.667 14.25 0.00 41.60 3.51
817 3232 2.762875 GACCGGTCGGGGAAGGAT 60.763 66.667 20.85 0.00 41.60 3.24
820 3235 3.315949 TTGGACCGGTCGGGGAAG 61.316 66.667 27.68 0.00 41.60 3.46
821 3236 3.628982 GTTGGACCGGTCGGGGAA 61.629 66.667 27.68 14.59 41.60 3.97
825 3240 3.186656 AAAGGGTTGGACCGGTCGG 62.187 63.158 27.68 7.97 39.83 4.79
826 3241 1.964373 CAAAGGGTTGGACCGGTCG 60.964 63.158 27.68 7.22 39.83 4.79
827 3242 4.074647 CAAAGGGTTGGACCGGTC 57.925 61.111 27.04 27.04 39.83 4.79
835 3250 0.815095 GCCGTTATCCCAAAGGGTTG 59.185 55.000 1.36 0.00 44.74 3.77
836 3251 0.406361 TGCCGTTATCCCAAAGGGTT 59.594 50.000 1.36 0.00 44.74 4.11
837 3252 0.406361 TTGCCGTTATCCCAAAGGGT 59.594 50.000 1.36 0.00 44.74 4.34
838 3253 1.102978 CTTGCCGTTATCCCAAAGGG 58.897 55.000 0.00 0.00 46.11 3.95
839 3254 1.743394 GACTTGCCGTTATCCCAAAGG 59.257 52.381 0.00 0.00 0.00 3.11
840 3255 1.396996 CGACTTGCCGTTATCCCAAAG 59.603 52.381 0.00 0.00 0.00 2.77
841 3256 1.002201 TCGACTTGCCGTTATCCCAAA 59.998 47.619 0.00 0.00 0.00 3.28
886 3308 0.760945 AGACGGGGAAGCTGGATAGG 60.761 60.000 0.00 0.00 0.00 2.57
1022 3481 2.429069 GGCGTCGGCAAGCAAAAG 60.429 61.111 14.73 0.00 42.47 2.27
1023 3482 4.320928 CGGCGTCGGCAAGCAAAA 62.321 61.111 19.59 0.00 42.47 2.44
1111 3578 2.357517 ACCTGCACGAAGGCGAAG 60.358 61.111 0.00 0.00 41.46 3.79
1329 3799 9.321562 ACTAAAATCGAAACTGAAGAAACTGTA 57.678 29.630 0.00 0.00 0.00 2.74
1384 3855 4.215185 TGCTACAACCAACATACACACATG 59.785 41.667 0.00 0.00 0.00 3.21
1426 3926 7.384477 GTCCTAACAGAAATTACTACTGGTGT 58.616 38.462 0.00 0.00 36.17 4.16
1427 3927 6.817140 GGTCCTAACAGAAATTACTACTGGTG 59.183 42.308 0.00 0.00 36.17 4.17
1428 3928 6.350780 CGGTCCTAACAGAAATTACTACTGGT 60.351 42.308 0.00 0.00 36.17 4.00
1429 3929 6.040878 CGGTCCTAACAGAAATTACTACTGG 58.959 44.000 0.00 0.00 36.17 4.00
1430 3930 6.040878 CCGGTCCTAACAGAAATTACTACTG 58.959 44.000 0.00 0.00 37.62 2.74
1431 3931 5.394993 GCCGGTCCTAACAGAAATTACTACT 60.395 44.000 1.90 0.00 0.00 2.57
1432 3932 4.807834 GCCGGTCCTAACAGAAATTACTAC 59.192 45.833 1.90 0.00 0.00 2.73
1433 3933 4.713321 AGCCGGTCCTAACAGAAATTACTA 59.287 41.667 1.90 0.00 0.00 1.82
1445 3948 3.134081 CCTTAAGAATCAGCCGGTCCTAA 59.866 47.826 1.90 0.00 0.00 2.69
1464 3967 2.568623 AACAGAGCGAACAATCCCTT 57.431 45.000 0.00 0.00 0.00 3.95
1465 3968 2.554032 CAAAACAGAGCGAACAATCCCT 59.446 45.455 0.00 0.00 0.00 4.20
1528 4041 5.046288 TGGCCTGGAAAAACAAATGAATT 57.954 34.783 3.32 0.00 0.00 2.17
1545 4058 1.986882 CCAGTTCTTGTCTTTGGCCT 58.013 50.000 3.32 0.00 0.00 5.19
1550 4063 3.217626 CTTCTGGCCAGTTCTTGTCTTT 58.782 45.455 31.58 0.00 0.00 2.52
1551 4064 2.856222 CTTCTGGCCAGTTCTTGTCTT 58.144 47.619 31.58 0.00 0.00 3.01
1552 4065 1.544314 GCTTCTGGCCAGTTCTTGTCT 60.544 52.381 31.58 0.00 34.27 3.41
1553 4066 0.877743 GCTTCTGGCCAGTTCTTGTC 59.122 55.000 31.58 11.54 34.27 3.18
1554 4067 0.183492 TGCTTCTGGCCAGTTCTTGT 59.817 50.000 31.58 0.00 40.92 3.16
1555 4068 1.321474 TTGCTTCTGGCCAGTTCTTG 58.679 50.000 31.58 18.01 40.92 3.02
1577 4090 4.878397 CACCTTCCATAATCTCACAAGGAC 59.122 45.833 2.54 0.00 35.37 3.85
1755 4270 3.686726 GTCTGTCATGCTTCCAGTTAAGG 59.313 47.826 0.00 0.00 0.00 2.69
1928 4443 2.423577 ACATTTAGCCTTCACCGTGTC 58.576 47.619 0.00 0.00 0.00 3.67
1932 4447 3.074412 AGTCAACATTTAGCCTTCACCG 58.926 45.455 0.00 0.00 0.00 4.94
1946 4461 2.771943 GGAGACCCATGGATAGTCAACA 59.228 50.000 15.22 0.00 32.82 3.33
1954 4469 0.344790 AGTGGAGGAGACCCATGGAT 59.655 55.000 15.22 0.00 35.91 3.41
1986 4501 5.106197 CCATCTTGTTTCATTCAACGGATGA 60.106 40.000 15.04 0.00 39.38 2.92
1989 4504 4.141287 ACCATCTTGTTTCATTCAACGGA 58.859 39.130 0.00 0.00 0.00 4.69
1990 4505 4.475944 GACCATCTTGTTTCATTCAACGG 58.524 43.478 0.00 0.00 0.00 4.44
1991 4506 4.216257 AGGACCATCTTGTTTCATTCAACG 59.784 41.667 0.00 0.00 0.00 4.10
1992 4507 5.335976 GGAGGACCATCTTGTTTCATTCAAC 60.336 44.000 0.00 0.00 35.97 3.18
1993 4508 4.766891 GGAGGACCATCTTGTTTCATTCAA 59.233 41.667 0.00 0.00 35.97 2.69
1994 4509 4.043310 AGGAGGACCATCTTGTTTCATTCA 59.957 41.667 0.00 0.00 38.94 2.57
1995 4510 4.593956 AGGAGGACCATCTTGTTTCATTC 58.406 43.478 0.00 0.00 38.94 2.67
1996 4511 4.664688 AGGAGGACCATCTTGTTTCATT 57.335 40.909 0.00 0.00 38.94 2.57
1997 4512 4.664688 AAGGAGGACCATCTTGTTTCAT 57.335 40.909 0.00 0.00 38.94 2.57
1998 4513 4.453480 AAAGGAGGACCATCTTGTTTCA 57.547 40.909 0.00 0.00 38.94 2.69
1999 4514 5.536538 AGAAAAAGGAGGACCATCTTGTTTC 59.463 40.000 15.97 15.97 38.94 2.78
2000 4515 5.458595 AGAAAAAGGAGGACCATCTTGTTT 58.541 37.500 0.00 1.61 38.94 2.83
2003 4518 6.037610 CGAATAGAAAAAGGAGGACCATCTTG 59.962 42.308 0.00 0.00 38.94 3.02
2004 4519 6.116126 CGAATAGAAAAAGGAGGACCATCTT 58.884 40.000 0.00 0.00 38.94 2.40
2005 4520 5.396884 CCGAATAGAAAAAGGAGGACCATCT 60.397 44.000 0.00 0.00 38.94 2.90
2006 4521 4.816925 CCGAATAGAAAAAGGAGGACCATC 59.183 45.833 0.00 0.00 38.94 3.51
2007 4522 4.473559 TCCGAATAGAAAAAGGAGGACCAT 59.526 41.667 0.00 0.00 38.94 3.55
2019 4705 4.165180 TCACCCCATCATTCCGAATAGAAA 59.835 41.667 0.00 0.00 0.00 2.52
2020 4706 3.714280 TCACCCCATCATTCCGAATAGAA 59.286 43.478 0.00 0.00 0.00 2.10
2021 4707 3.071023 GTCACCCCATCATTCCGAATAGA 59.929 47.826 0.00 0.00 0.00 1.98
2022 4708 3.071602 AGTCACCCCATCATTCCGAATAG 59.928 47.826 0.00 0.00 0.00 1.73
2023 4709 3.045634 AGTCACCCCATCATTCCGAATA 58.954 45.455 0.00 0.00 0.00 1.75
2026 4712 1.209504 GAAGTCACCCCATCATTCCGA 59.790 52.381 0.00 0.00 0.00 4.55
2029 4715 3.879892 GCTAAGAAGTCACCCCATCATTC 59.120 47.826 0.00 0.00 0.00 2.67
2030 4716 3.266772 TGCTAAGAAGTCACCCCATCATT 59.733 43.478 0.00 0.00 0.00 2.57
2031 4717 2.846206 TGCTAAGAAGTCACCCCATCAT 59.154 45.455 0.00 0.00 0.00 2.45
2032 4718 2.265367 TGCTAAGAAGTCACCCCATCA 58.735 47.619 0.00 0.00 0.00 3.07
2033 4719 3.567478 ATGCTAAGAAGTCACCCCATC 57.433 47.619 0.00 0.00 0.00 3.51
2035 4721 2.912956 AGAATGCTAAGAAGTCACCCCA 59.087 45.455 0.00 0.00 0.00 4.96
2036 4722 3.636153 AGAATGCTAAGAAGTCACCCC 57.364 47.619 0.00 0.00 0.00 4.95
2037 4723 6.407202 TCTTAAGAATGCTAAGAAGTCACCC 58.593 40.000 1.68 0.00 0.00 4.61
2064 4750 9.924650 GAAGAAGGTGAAGTATTGTAAGACTTA 57.075 33.333 4.77 0.00 40.25 2.24
2092 6926 3.564511 CAACCGCCTGTTTGATAGTTTG 58.435 45.455 0.00 0.00 34.00 2.93
2111 6945 1.962807 CAGGGTTTTCACAGCATCCAA 59.037 47.619 0.00 0.00 0.00 3.53
2130 6964 6.889177 TCATTTATTTGCCACTTACATCCTCA 59.111 34.615 0.00 0.00 0.00 3.86
2131 6965 7.196331 GTCATTTATTTGCCACTTACATCCTC 58.804 38.462 0.00 0.00 0.00 3.71
2132 6966 6.183360 CGTCATTTATTTGCCACTTACATCCT 60.183 38.462 0.00 0.00 0.00 3.24
2133 6967 5.971202 CGTCATTTATTTGCCACTTACATCC 59.029 40.000 0.00 0.00 0.00 3.51
2134 6968 6.551736 ACGTCATTTATTTGCCACTTACATC 58.448 36.000 0.00 0.00 0.00 3.06
2135 6969 6.404293 GGACGTCATTTATTTGCCACTTACAT 60.404 38.462 18.91 0.00 0.00 2.29
2136 6970 5.106475 GGACGTCATTTATTTGCCACTTACA 60.106 40.000 18.91 0.00 0.00 2.41
2137 6971 5.329493 GGACGTCATTTATTTGCCACTTAC 58.671 41.667 18.91 0.00 0.00 2.34
2138 6972 4.093703 CGGACGTCATTTATTTGCCACTTA 59.906 41.667 18.91 0.00 0.00 2.24
2139 6973 3.119990 CGGACGTCATTTATTTGCCACTT 60.120 43.478 18.91 0.00 0.00 3.16
2140 6974 2.418628 CGGACGTCATTTATTTGCCACT 59.581 45.455 18.91 0.00 0.00 4.00
2141 6975 2.780993 CGGACGTCATTTATTTGCCAC 58.219 47.619 18.91 0.00 0.00 5.01
2142 6976 1.131504 GCGGACGTCATTTATTTGCCA 59.868 47.619 18.91 0.00 0.00 4.92
2143 6977 1.131504 TGCGGACGTCATTTATTTGCC 59.868 47.619 18.91 0.00 0.00 4.52
2144 6978 2.535934 TGCGGACGTCATTTATTTGC 57.464 45.000 18.91 7.92 0.00 3.68
2145 6979 4.499040 GGAATTGCGGACGTCATTTATTTG 59.501 41.667 18.91 0.00 0.00 2.32
2146 6980 4.668289 GGAATTGCGGACGTCATTTATTT 58.332 39.130 18.91 3.30 0.00 1.40
2147 6981 3.242608 CGGAATTGCGGACGTCATTTATT 60.243 43.478 18.91 10.92 0.00 1.40
2148 6982 2.286833 CGGAATTGCGGACGTCATTTAT 59.713 45.455 18.91 2.30 0.00 1.40
2149 6983 1.661617 CGGAATTGCGGACGTCATTTA 59.338 47.619 18.91 0.00 0.00 1.40
2150 6984 0.446222 CGGAATTGCGGACGTCATTT 59.554 50.000 18.91 2.72 0.00 2.32
2151 6985 0.672401 ACGGAATTGCGGACGTCATT 60.672 50.000 23.54 8.25 33.92 2.57
2152 6986 0.672401 AACGGAATTGCGGACGTCAT 60.672 50.000 23.54 0.00 38.79 3.06
2153 6987 0.881159 AAACGGAATTGCGGACGTCA 60.881 50.000 23.54 0.00 38.79 4.35
2154 6988 1.060122 CTAAACGGAATTGCGGACGTC 59.940 52.381 23.54 7.13 38.79 4.34
2155 6989 1.073177 CTAAACGGAATTGCGGACGT 58.927 50.000 23.54 7.80 41.88 4.34
2156 6990 1.073177 ACTAAACGGAATTGCGGACG 58.927 50.000 23.54 10.81 0.00 4.79
2157 6991 3.681417 ACTAACTAAACGGAATTGCGGAC 59.319 43.478 23.54 0.00 0.00 4.79
2158 6992 3.929094 ACTAACTAAACGGAATTGCGGA 58.071 40.909 23.54 7.44 0.00 5.54
2159 6993 4.673534 AACTAACTAAACGGAATTGCGG 57.326 40.909 23.54 7.99 0.00 5.69
2160 6994 6.633634 TCAAAAACTAACTAAACGGAATTGCG 59.366 34.615 18.40 18.40 0.00 4.85
2161 6995 7.917720 TCAAAAACTAACTAAACGGAATTGC 57.082 32.000 0.00 0.00 0.00 3.56
2163 6997 9.836076 GCTATCAAAAACTAACTAAACGGAATT 57.164 29.630 0.00 0.00 0.00 2.17
2164 6998 9.227777 AGCTATCAAAAACTAACTAAACGGAAT 57.772 29.630 0.00 0.00 0.00 3.01
2165 6999 8.611654 AGCTATCAAAAACTAACTAAACGGAA 57.388 30.769 0.00 0.00 0.00 4.30
2166 7000 8.500773 CAAGCTATCAAAAACTAACTAAACGGA 58.499 33.333 0.00 0.00 0.00 4.69
2167 7001 8.500773 TCAAGCTATCAAAAACTAACTAAACGG 58.499 33.333 0.00 0.00 0.00 4.44
2181 7015 9.466497 AGGAAAATGAACTATCAAGCTATCAAA 57.534 29.630 0.00 0.00 39.49 2.69
2182 7016 9.113838 GAGGAAAATGAACTATCAAGCTATCAA 57.886 33.333 0.00 0.00 39.49 2.57
2183 7017 8.267183 TGAGGAAAATGAACTATCAAGCTATCA 58.733 33.333 0.00 0.00 39.49 2.15
2184 7018 8.668510 TGAGGAAAATGAACTATCAAGCTATC 57.331 34.615 0.00 0.00 39.49 2.08
2185 7019 9.466497 TTTGAGGAAAATGAACTATCAAGCTAT 57.534 29.630 0.00 0.00 39.49 2.97
2186 7020 8.730680 GTTTGAGGAAAATGAACTATCAAGCTA 58.269 33.333 0.00 0.00 39.49 3.32
2187 7021 7.231317 TGTTTGAGGAAAATGAACTATCAAGCT 59.769 33.333 0.00 0.00 39.49 3.74
2188 7022 7.370383 TGTTTGAGGAAAATGAACTATCAAGC 58.630 34.615 0.00 0.00 39.49 4.01
2189 7023 9.748708 TTTGTTTGAGGAAAATGAACTATCAAG 57.251 29.630 0.00 0.00 39.49 3.02
2190 7024 9.528018 GTTTGTTTGAGGAAAATGAACTATCAA 57.472 29.630 0.00 0.00 39.49 2.57
2191 7025 8.690884 TGTTTGTTTGAGGAAAATGAACTATCA 58.309 29.630 0.00 0.00 40.57 2.15
2192 7026 9.528018 TTGTTTGTTTGAGGAAAATGAACTATC 57.472 29.630 0.00 0.00 31.70 2.08
2193 7027 9.883142 TTTGTTTGTTTGAGGAAAATGAACTAT 57.117 25.926 0.00 0.00 31.70 2.12
2194 7028 9.712305 TTTTGTTTGTTTGAGGAAAATGAACTA 57.288 25.926 0.00 0.00 31.70 2.24
2195 7029 8.614469 TTTTGTTTGTTTGAGGAAAATGAACT 57.386 26.923 0.00 0.00 31.70 3.01
2236 7070 9.529325 CTCGTTTAAAGTCCACTTATGATATGA 57.471 33.333 0.00 0.00 34.61 2.15
2237 7071 9.529325 TCTCGTTTAAAGTCCACTTATGATATG 57.471 33.333 0.00 0.00 34.61 1.78
2241 7075 9.932207 TTAATCTCGTTTAAAGTCCACTTATGA 57.068 29.630 0.00 0.00 34.61 2.15
2245 7079 9.893305 CAATTTAATCTCGTTTAAAGTCCACTT 57.107 29.630 0.00 0.00 35.24 3.16
2246 7080 9.280174 TCAATTTAATCTCGTTTAAAGTCCACT 57.720 29.630 0.00 0.00 35.24 4.00
2247 7081 9.326339 GTCAATTTAATCTCGTTTAAAGTCCAC 57.674 33.333 0.00 2.07 35.24 4.02
2248 7082 9.058174 TGTCAATTTAATCTCGTTTAAAGTCCA 57.942 29.630 0.00 2.65 35.24 4.02
2252 7086 9.503427 GGGATGTCAATTTAATCTCGTTTAAAG 57.497 33.333 0.00 0.00 35.24 1.85
2253 7087 9.238368 AGGGATGTCAATTTAATCTCGTTTAAA 57.762 29.630 0.00 0.00 35.98 1.52
2254 7088 8.801882 AGGGATGTCAATTTAATCTCGTTTAA 57.198 30.769 0.00 0.00 0.00 1.52
2255 7089 9.542462 CTAGGGATGTCAATTTAATCTCGTTTA 57.458 33.333 0.00 0.00 0.00 2.01
2256 7090 7.499232 CCTAGGGATGTCAATTTAATCTCGTTT 59.501 37.037 0.00 0.00 0.00 3.60
2257 7091 6.992715 CCTAGGGATGTCAATTTAATCTCGTT 59.007 38.462 0.00 0.00 0.00 3.85
2258 7092 6.525629 CCTAGGGATGTCAATTTAATCTCGT 58.474 40.000 0.00 0.00 0.00 4.18
2259 7093 5.409826 GCCTAGGGATGTCAATTTAATCTCG 59.590 44.000 11.72 0.00 0.00 4.04
2260 7094 5.707764 GGCCTAGGGATGTCAATTTAATCTC 59.292 44.000 11.72 0.00 0.00 2.75
2261 7095 5.635120 GGCCTAGGGATGTCAATTTAATCT 58.365 41.667 11.72 0.00 0.00 2.40
2262 7096 4.455877 CGGCCTAGGGATGTCAATTTAATC 59.544 45.833 11.72 0.00 0.00 1.75
2263 7097 4.398319 CGGCCTAGGGATGTCAATTTAAT 58.602 43.478 11.72 0.00 0.00 1.40
2264 7098 3.434453 CCGGCCTAGGGATGTCAATTTAA 60.434 47.826 11.72 0.00 0.00 1.52
2265 7099 2.105821 CCGGCCTAGGGATGTCAATTTA 59.894 50.000 11.72 0.00 0.00 1.40
2266 7100 1.133792 CCGGCCTAGGGATGTCAATTT 60.134 52.381 11.72 0.00 0.00 1.82
2267 7101 0.474184 CCGGCCTAGGGATGTCAATT 59.526 55.000 11.72 0.00 0.00 2.32
2268 7102 0.399949 TCCGGCCTAGGGATGTCAAT 60.400 55.000 11.72 0.00 0.00 2.57
2269 7103 0.619255 TTCCGGCCTAGGGATGTCAA 60.619 55.000 11.72 0.00 32.58 3.18
2270 7104 0.619255 TTTCCGGCCTAGGGATGTCA 60.619 55.000 11.72 0.00 32.58 3.58
2271 7105 0.544697 TTTTCCGGCCTAGGGATGTC 59.455 55.000 11.72 0.00 32.58 3.06
2272 7106 1.143073 GATTTTCCGGCCTAGGGATGT 59.857 52.381 11.72 0.00 32.58 3.06
2273 7107 1.545651 GGATTTTCCGGCCTAGGGATG 60.546 57.143 11.72 0.00 32.58 3.51
2274 7108 0.771755 GGATTTTCCGGCCTAGGGAT 59.228 55.000 11.72 0.00 32.58 3.85
2275 7109 0.327191 AGGATTTTCCGGCCTAGGGA 60.327 55.000 11.72 0.00 42.75 4.20
2276 7110 0.179018 CAGGATTTTCCGGCCTAGGG 60.179 60.000 11.72 0.00 42.75 3.53
2277 7111 0.546598 ACAGGATTTTCCGGCCTAGG 59.453 55.000 3.67 3.67 42.75 3.02
2278 7112 2.017049 CAACAGGATTTTCCGGCCTAG 58.983 52.381 0.00 0.00 42.75 3.02
2279 7113 1.353022 ACAACAGGATTTTCCGGCCTA 59.647 47.619 0.00 0.00 42.75 3.93
2280 7114 0.112412 ACAACAGGATTTTCCGGCCT 59.888 50.000 0.00 0.00 42.75 5.19
2281 7115 0.526211 GACAACAGGATTTTCCGGCC 59.474 55.000 0.00 0.00 42.75 6.13
2282 7116 0.526211 GGACAACAGGATTTTCCGGC 59.474 55.000 0.00 0.00 42.75 6.13
2283 7117 2.200373 AGGACAACAGGATTTTCCGG 57.800 50.000 0.00 0.00 42.75 5.14
2284 7118 4.513442 TCATAGGACAACAGGATTTTCCG 58.487 43.478 0.00 0.00 42.75 4.30
2310 7144 4.941263 TCCACCTTACTTGCATGTTATGTC 59.059 41.667 10.85 0.00 0.00 3.06
2320 7154 1.946283 GCTGGACTCCACCTTACTTGC 60.946 57.143 0.00 0.00 0.00 4.01
2360 7194 1.268133 GCGTACTGGCGAGAAGTAGAG 60.268 57.143 1.44 0.00 30.90 2.43
2387 7221 2.129607 GTTGCAATTGACAAGCCACTG 58.870 47.619 10.34 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.