Multiple sequence alignment - TraesCS2B01G403800

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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 TraesCS2B01G403800 chr2B 100.000 2745 0 0 1 2745 572155217 572157961 0.000000e+00 5070.0
1 TraesCS2B01G403800 chr2B 90.196 204 17 2 2075 2276 661175506 661175304 2.100000e-66 263.0
2 TraesCS2B01G403800 chr2B 79.233 313 39 20 454 752 572183901 572184201 7.760000e-46 195.0
3 TraesCS2B01G403800 chr2D 88.822 1834 107 26 286 2076 487492583 487494361 0.000000e+00 2161.0
4 TraesCS2B01G403800 chr2D 88.200 500 18 20 2281 2745 487494366 487494859 2.390000e-155 558.0
5 TraesCS2B01G403800 chr2D 96.813 251 8 0 1 251 487492270 487492520 1.180000e-113 420.0
6 TraesCS2B01G403800 chr2D 82.902 193 21 6 454 636 487725791 487725981 2.190000e-36 163.0
7 TraesCS2B01G403800 chr2A 87.517 1458 78 39 669 2069 632506564 632507974 0.000000e+00 1589.0
8 TraesCS2B01G403800 chr2A 94.444 234 10 3 2279 2511 632507983 632508214 9.350000e-95 357.0
9 TraesCS2B01G403800 chr2A 89.571 163 17 0 2114 2276 399330495 399330333 9.960000e-50 207.0
10 TraesCS2B01G403800 chr3B 97.561 164 4 0 2114 2277 556678956 556679119 5.790000e-72 281.0
11 TraesCS2B01G403800 chr3B 86.607 224 12 2 2070 2276 575502144 575502366 5.910000e-57 231.0
12 TraesCS2B01G403800 chr3B 79.808 104 20 1 290 393 157528944 157529046 1.050000e-09 75.0
13 TraesCS2B01G403800 chr4A 96.407 167 6 0 2114 2280 599841006 599840840 2.690000e-70 276.0
14 TraesCS2B01G403800 chr4A 96.364 55 1 1 248 302 147571008 147570955 3.770000e-14 89.8
15 TraesCS2B01G403800 chr5B 96.894 161 5 0 2114 2274 249374313 249374473 1.250000e-68 270.0
16 TraesCS2B01G403800 chr5B 93.548 93 6 0 248 340 50231355 50231263 3.690000e-29 139.0
17 TraesCS2B01G403800 chr4B 96.319 163 6 0 2114 2276 68116617 68116779 4.510000e-68 268.0
18 TraesCS2B01G403800 chr6B 95.706 163 7 0 2114 2276 225881416 225881578 2.100000e-66 263.0
19 TraesCS2B01G403800 chr6B 86.574 216 21 7 2066 2276 613573054 613572842 5.910000e-57 231.0
20 TraesCS2B01G403800 chr6B 91.379 58 5 0 283 340 392672340 392672283 2.270000e-11 80.5
21 TraesCS2B01G403800 chr6B 97.674 43 1 0 2074 2116 225881359 225881401 1.050000e-09 75.0
22 TraesCS2B01G403800 chr3A 94.643 168 9 0 2114 2281 535225579 535225746 7.540000e-66 261.0
23 TraesCS2B01G403800 chr6A 81.875 320 40 10 1289 1603 448061261 448061567 1.260000e-63 254.0
24 TraesCS2B01G403800 chr7B 87.736 212 21 3 2070 2276 150581716 150581927 2.730000e-60 243.0
25 TraesCS2B01G403800 chr7B 92.683 164 11 1 2114 2277 539652578 539652416 4.570000e-58 235.0
26 TraesCS2B01G403800 chr7B 78.632 117 23 2 286 401 747216715 747216830 2.930000e-10 76.8
27 TraesCS2B01G403800 chr6D 87.678 211 23 2 1396 1603 311301048 311301258 2.730000e-60 243.0
28 TraesCS2B01G403800 chr6D 98.113 53 0 1 248 299 14121625 14121573 1.050000e-14 91.6
29 TraesCS2B01G403800 chr6D 98.113 53 0 1 248 299 29020188 29020240 1.050000e-14 91.6
30 TraesCS2B01G403800 chr6D 98.113 53 0 1 248 299 75829228 75829176 1.050000e-14 91.6
31 TraesCS2B01G403800 chr6D 98.113 53 0 1 248 299 205413512 205413460 1.050000e-14 91.6
32 TraesCS2B01G403800 chr6D 98.113 53 0 1 248 299 205873039 205873091 1.050000e-14 91.6
33 TraesCS2B01G403800 chr6D 98.113 53 0 1 248 299 334284261 334284209 1.050000e-14 91.6
34 TraesCS2B01G403800 chr7A 85.388 219 15 7 2075 2276 241173385 241173603 7.700000e-51 211.0
35 TraesCS2B01G403800 chr1D 91.781 146 12 0 2114 2259 483048754 483048609 1.290000e-48 204.0
36 TraesCS2B01G403800 chr5D 78.710 155 28 5 248 400 532252539 532252690 6.260000e-17 99.0
37 TraesCS2B01G403800 chr1B 91.379 58 4 1 193 249 297727293 297727236 8.150000e-11 78.7
38 TraesCS2B01G403800 chr3D 100.000 30 0 0 203 232 61188678 61188649 3.820000e-04 56.5


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G403800 chr2B 572155217 572157961 2744 False 5070.000000 5070 100.000000 1 2745 1 chr2B.!!$F1 2744
1 TraesCS2B01G403800 chr2D 487492270 487494859 2589 False 1046.333333 2161 91.278333 1 2745 3 chr2D.!!$F2 2744
2 TraesCS2B01G403800 chr2A 632506564 632508214 1650 False 973.000000 1589 90.980500 669 2511 2 chr2A.!!$F1 1842

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
531 560 0.03582 TTGGACATCCCACGGCTTAC 60.036 55.0 0.0 0.0 46.62 2.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2359 2466 0.248565 GTACCGTTCCCACCTTCCTC 59.751 60.0 0.0 0.0 0.0 3.71 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
26 27 2.973224 GCTACATGCAAACAACGACAAG 59.027 45.455 0.00 0.00 42.31 3.16
101 102 6.465948 TGTAAATTAGTTCGGCTCTTGGTTA 58.534 36.000 0.00 0.00 0.00 2.85
130 131 8.597662 AATTATTTTCACAATGATAGCCATGC 57.402 30.769 0.00 0.00 35.24 4.06
163 164 3.380637 ACGACGTATGCATTTCCTAGAGT 59.619 43.478 3.54 0.00 0.00 3.24
251 252 6.921914 AGCTACGTCTTATATTGTGGGATAC 58.078 40.000 0.00 0.00 0.00 2.24
253 254 7.178628 AGCTACGTCTTATATTGTGGGATACAT 59.821 37.037 0.00 0.00 39.48 2.29
254 255 7.488471 GCTACGTCTTATATTGTGGGATACATC 59.512 40.741 0.00 0.00 39.48 3.06
255 256 6.698380 ACGTCTTATATTGTGGGATACATCC 58.302 40.000 0.00 0.00 46.41 3.51
267 268 4.336889 GGATACATCCATTTCCGAGACA 57.663 45.455 3.26 0.00 46.38 3.41
268 269 4.703897 GGATACATCCATTTCCGAGACAA 58.296 43.478 3.26 0.00 46.38 3.18
269 270 4.752101 GGATACATCCATTTCCGAGACAAG 59.248 45.833 3.26 0.00 46.38 3.16
271 272 4.819105 ACATCCATTTCCGAGACAAGTA 57.181 40.909 0.00 0.00 0.00 2.24
272 273 5.160607 ACATCCATTTCCGAGACAAGTAA 57.839 39.130 0.00 0.00 0.00 2.24
273 274 5.745227 ACATCCATTTCCGAGACAAGTAAT 58.255 37.500 0.00 0.00 0.00 1.89
274 275 6.180472 ACATCCATTTCCGAGACAAGTAATT 58.820 36.000 0.00 0.00 0.00 1.40
275 276 6.316390 ACATCCATTTCCGAGACAAGTAATTC 59.684 38.462 0.00 0.00 0.00 2.17
276 277 6.049955 TCCATTTCCGAGACAAGTAATTCT 57.950 37.500 0.00 0.00 0.00 2.40
278 279 5.874810 CCATTTCCGAGACAAGTAATTCTGA 59.125 40.000 0.00 0.00 0.00 3.27
279 280 6.371548 CCATTTCCGAGACAAGTAATTCTGAA 59.628 38.462 0.00 0.00 0.00 3.02
281 282 4.482386 TCCGAGACAAGTAATTCTGAACG 58.518 43.478 0.00 0.00 0.00 3.95
282 283 3.612860 CCGAGACAAGTAATTCTGAACGG 59.387 47.826 0.00 0.00 0.00 4.44
284 285 4.559251 CGAGACAAGTAATTCTGAACGGAG 59.441 45.833 0.00 0.00 0.00 4.63
288 317 4.184629 CAAGTAATTCTGAACGGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
316 345 9.903682 ACATACAAAGAAAAATGAGTGAATCTG 57.096 29.630 0.00 0.00 0.00 2.90
360 389 9.999009 ACATACGTTCATATATAGTCCGTATTG 57.001 33.333 0.00 11.51 37.78 1.90
404 433 9.841295 TTGTATTTAGAAACAAGGAAGTACAGT 57.159 29.630 0.00 0.00 32.11 3.55
405 434 9.268268 TGTATTTAGAAACAAGGAAGTACAGTG 57.732 33.333 0.00 0.00 0.00 3.66
406 435 9.269453 GTATTTAGAAACAAGGAAGTACAGTGT 57.731 33.333 0.00 0.00 0.00 3.55
407 436 7.548196 TTTAGAAACAAGGAAGTACAGTGTG 57.452 36.000 5.88 0.00 0.00 3.82
444 473 8.612619 CACTCAAACACTATTACATTATGGGAC 58.387 37.037 0.00 0.00 0.00 4.46
449 478 8.908786 AACACTATTACATTATGGGACTGATG 57.091 34.615 0.00 0.00 0.00 3.07
478 507 2.541466 ACTAGCTAGCTGTGGTCCTTT 58.459 47.619 27.68 0.00 0.00 3.11
528 557 0.394352 GATTTGGACATCCCACGGCT 60.394 55.000 0.00 0.00 46.62 5.52
531 560 0.035820 TTGGACATCCCACGGCTTAC 60.036 55.000 0.00 0.00 46.62 2.34
549 578 0.249699 ACACTCCGTCGACATGCAAA 60.250 50.000 17.16 0.00 0.00 3.68
550 579 0.439985 CACTCCGTCGACATGCAAAG 59.560 55.000 17.16 5.45 0.00 2.77
551 580 0.670546 ACTCCGTCGACATGCAAAGG 60.671 55.000 17.16 6.71 0.00 3.11
554 583 1.421485 CGTCGACATGCAAAGGCTC 59.579 57.895 17.16 0.00 41.91 4.70
571 600 1.459756 CTCTTGCGCGTAATTGCATG 58.540 50.000 10.79 0.00 41.42 4.06
577 606 1.006086 CGCGTAATTGCATGGACAGA 58.994 50.000 0.00 0.00 34.15 3.41
583 612 4.629634 CGTAATTGCATGGACAGAAGTACA 59.370 41.667 0.00 0.00 44.28 2.90
593 622 6.701145 TGGACAGAAGTACATGACTCTATC 57.299 41.667 0.00 0.00 37.44 2.08
595 624 6.892456 TGGACAGAAGTACATGACTCTATCTT 59.108 38.462 0.00 0.00 37.44 2.40
596 625 7.148000 TGGACAGAAGTACATGACTCTATCTTG 60.148 40.741 0.00 0.00 37.44 3.02
597 626 7.147983 GGACAGAAGTACATGACTCTATCTTGT 60.148 40.741 0.00 1.70 45.23 3.16
598 627 8.809468 ACAGAAGTACATGACTCTATCTTGTA 57.191 34.615 0.00 0.00 42.38 2.41
599 628 9.244292 ACAGAAGTACATGACTCTATCTTGTAA 57.756 33.333 0.00 0.00 44.93 2.41
600 629 9.509855 CAGAAGTACATGACTCTATCTTGTAAC 57.490 37.037 0.00 1.65 44.93 2.50
607 638 4.081642 TGACTCTATCTTGTAACTGTGGCC 60.082 45.833 0.00 0.00 0.00 5.36
608 639 3.197983 ACTCTATCTTGTAACTGTGGCCC 59.802 47.826 0.00 0.00 0.00 5.80
616 647 1.178534 TAACTGTGGCCCAAAGCAGC 61.179 55.000 0.00 0.00 46.50 5.25
648 679 2.506438 GTAGTGTGGCGGACGCTC 60.506 66.667 16.72 10.45 41.93 5.03
649 680 2.675423 TAGTGTGGCGGACGCTCT 60.675 61.111 16.72 4.24 41.93 4.09
650 681 2.697761 TAGTGTGGCGGACGCTCTC 61.698 63.158 16.72 10.53 41.93 3.20
653 684 4.803426 GTGGCGGACGCTCTCCAG 62.803 72.222 16.72 0.00 39.39 3.86
655 686 4.200283 GGCGGACGCTCTCCAGAG 62.200 72.222 16.72 0.00 44.75 3.35
656 687 3.444805 GCGGACGCTCTCCAGAGT 61.445 66.667 9.76 0.00 43.85 3.24
657 688 2.795297 CGGACGCTCTCCAGAGTC 59.205 66.667 5.49 0.00 46.01 3.36
659 690 4.004348 GACGCTCTCCAGAGTCCA 57.996 61.111 5.49 0.00 42.15 4.02
660 691 1.806568 GACGCTCTCCAGAGTCCAG 59.193 63.158 5.49 0.00 42.15 3.86
661 692 2.278182 GACGCTCTCCAGAGTCCAGC 62.278 65.000 5.49 0.00 42.15 4.85
662 693 2.493973 GCTCTCCAGAGTCCAGCG 59.506 66.667 5.49 0.00 43.85 5.18
665 696 0.754957 CTCTCCAGAGTCCAGCGGAT 60.755 60.000 0.67 0.00 37.40 4.18
709 740 1.369625 CGGAGAACACCAGCCATTAC 58.630 55.000 0.00 0.00 0.00 1.89
718 749 2.294791 CACCAGCCATTACCGAACAAAA 59.705 45.455 0.00 0.00 0.00 2.44
741 772 2.975799 GCCTCGCCACCGAAAACA 60.976 61.111 0.00 0.00 43.87 2.83
779 811 6.948228 GTCAAAAGAAAAGAAAAGAAACACGC 59.052 34.615 0.00 0.00 0.00 5.34
802 834 4.625225 AAATCCCAGACAAATACCCCAT 57.375 40.909 0.00 0.00 0.00 4.00
823 855 1.012841 CGAAATCTTCTCCTGCCAGC 58.987 55.000 0.00 0.00 0.00 4.85
902 945 0.531974 AACGACGAGCTGCAGGAAAA 60.532 50.000 17.12 0.00 0.00 2.29
903 946 0.531974 ACGACGAGCTGCAGGAAAAA 60.532 50.000 17.12 0.00 0.00 1.94
1029 1073 1.706443 GACTTCCGTTACCAGTTCCG 58.294 55.000 0.00 0.00 0.00 4.30
1046 1090 1.614241 CCGTCCGTCTCCTCCCATTT 61.614 60.000 0.00 0.00 0.00 2.32
1089 1138 1.219393 CTCGTCCAGGAAAGGAGGC 59.781 63.158 0.00 0.00 41.98 4.70
1120 1169 1.814169 GGGCGGTTCGTTCAGATCC 60.814 63.158 0.00 0.00 35.78 3.36
1149 1198 1.613630 ATGCCGAGGACAAGGAGGT 60.614 57.895 0.00 0.00 0.00 3.85
1506 1561 2.293318 ATGTTCGGGGAGCTGCTGA 61.293 57.895 7.01 0.41 0.00 4.26
1514 1569 4.527583 GAGCTGCTGAGGGAGGCG 62.528 72.222 7.01 0.00 0.00 5.52
1659 1726 2.192187 CGTAGGCGTAGGAGTCCCC 61.192 68.421 5.25 0.00 0.00 4.81
1806 1879 2.934553 GCCGTTTAACTAGTGGATGGAC 59.065 50.000 13.17 4.24 0.00 4.02
1809 1882 2.934553 GTTTAACTAGTGGATGGACGCC 59.065 50.000 0.00 0.00 0.00 5.68
1826 1899 3.441163 ACGCCGTTCTTTTTCTTTTTCC 58.559 40.909 0.00 0.00 0.00 3.13
1827 1900 3.129813 ACGCCGTTCTTTTTCTTTTTCCT 59.870 39.130 0.00 0.00 0.00 3.36
1828 1901 4.336153 ACGCCGTTCTTTTTCTTTTTCCTA 59.664 37.500 0.00 0.00 0.00 2.94
1829 1902 5.009310 ACGCCGTTCTTTTTCTTTTTCCTAT 59.991 36.000 0.00 0.00 0.00 2.57
1830 1903 5.342259 CGCCGTTCTTTTTCTTTTTCCTATG 59.658 40.000 0.00 0.00 0.00 2.23
1831 1904 5.633601 GCCGTTCTTTTTCTTTTTCCTATGG 59.366 40.000 0.00 0.00 0.00 2.74
1833 1906 7.602753 CCGTTCTTTTTCTTTTTCCTATGGAT 58.397 34.615 0.00 0.00 0.00 3.41
1834 1907 8.088365 CCGTTCTTTTTCTTTTTCCTATGGATT 58.912 33.333 0.00 0.00 0.00 3.01
1838 1940 8.367156 TCTTTTTCTTTTTCCTATGGATTGTGG 58.633 33.333 0.00 0.00 0.00 4.17
1864 1966 6.939622 TGCAAGTTCATCTCAGAATCTCTAA 58.060 36.000 0.00 0.00 0.00 2.10
1866 1968 7.548427 TGCAAGTTCATCTCAGAATCTCTAAAG 59.452 37.037 0.00 0.00 0.00 1.85
1898 2000 2.158623 TGCTGTTGACAAATCTGACCCT 60.159 45.455 0.00 0.00 0.00 4.34
2014 2116 3.417601 TCGGAGTCGATGCTACGG 58.582 61.111 7.72 0.00 42.68 4.02
2061 2164 1.943340 GCCCAGCCTAGAAATTTCTCG 59.057 52.381 23.70 17.26 38.70 4.04
2072 2175 4.161333 AGAAATTTCTCGCGAGCAAAATG 58.839 39.130 30.97 7.12 29.94 2.32
2085 2188 2.629051 GCAAAATGCTACTACCTCCGT 58.371 47.619 0.00 0.00 40.96 4.69
2086 2189 2.608090 GCAAAATGCTACTACCTCCGTC 59.392 50.000 0.00 0.00 40.96 4.79
2087 2190 3.679083 GCAAAATGCTACTACCTCCGTCT 60.679 47.826 0.00 0.00 40.96 4.18
2088 2191 4.113354 CAAAATGCTACTACCTCCGTCTC 58.887 47.826 0.00 0.00 0.00 3.36
2089 2192 2.730934 ATGCTACTACCTCCGTCTCA 57.269 50.000 0.00 0.00 0.00 3.27
2090 2193 2.039818 TGCTACTACCTCCGTCTCAG 57.960 55.000 0.00 0.00 0.00 3.35
2091 2194 1.281287 TGCTACTACCTCCGTCTCAGT 59.719 52.381 0.00 0.00 0.00 3.41
2092 2195 1.671845 GCTACTACCTCCGTCTCAGTG 59.328 57.143 0.00 0.00 0.00 3.66
2093 2196 2.680221 GCTACTACCTCCGTCTCAGTGA 60.680 54.545 0.00 0.00 0.00 3.41
2094 2197 2.581216 ACTACCTCCGTCTCAGTGAA 57.419 50.000 0.00 0.00 0.00 3.18
2095 2198 3.088789 ACTACCTCCGTCTCAGTGAAT 57.911 47.619 0.00 0.00 0.00 2.57
2096 2199 4.232188 ACTACCTCCGTCTCAGTGAATA 57.768 45.455 0.00 0.00 0.00 1.75
2097 2200 4.597004 ACTACCTCCGTCTCAGTGAATAA 58.403 43.478 0.00 0.00 0.00 1.40
2098 2201 4.641094 ACTACCTCCGTCTCAGTGAATAAG 59.359 45.833 0.00 0.00 0.00 1.73
2099 2202 3.432378 ACCTCCGTCTCAGTGAATAAGT 58.568 45.455 0.00 0.00 0.00 2.24
2100 2203 3.444388 ACCTCCGTCTCAGTGAATAAGTC 59.556 47.826 0.00 0.00 0.00 3.01
2101 2204 3.444034 CCTCCGTCTCAGTGAATAAGTCA 59.556 47.826 0.00 0.00 0.00 3.41
2102 2205 4.098654 CCTCCGTCTCAGTGAATAAGTCAT 59.901 45.833 0.00 0.00 38.90 3.06
2103 2206 5.394663 CCTCCGTCTCAGTGAATAAGTCATT 60.395 44.000 0.00 0.00 38.90 2.57
2104 2207 6.037786 TCCGTCTCAGTGAATAAGTCATTT 57.962 37.500 0.00 0.00 38.90 2.32
2105 2208 5.869344 TCCGTCTCAGTGAATAAGTCATTTG 59.131 40.000 0.00 0.00 38.90 2.32
2106 2209 5.446473 CCGTCTCAGTGAATAAGTCATTTGC 60.446 44.000 0.00 0.00 38.90 3.68
2107 2210 5.554636 GTCTCAGTGAATAAGTCATTTGCG 58.445 41.667 0.00 0.00 38.90 4.85
2108 2211 5.120830 GTCTCAGTGAATAAGTCATTTGCGT 59.879 40.000 0.00 0.00 38.90 5.24
2109 2212 6.310467 GTCTCAGTGAATAAGTCATTTGCGTA 59.690 38.462 0.00 0.00 38.90 4.42
2110 2213 6.531594 TCTCAGTGAATAAGTCATTTGCGTAG 59.468 38.462 0.00 0.00 38.90 3.51
2111 2214 6.163476 TCAGTGAATAAGTCATTTGCGTAGT 58.837 36.000 0.00 0.00 38.90 2.73
2112 2215 6.649141 TCAGTGAATAAGTCATTTGCGTAGTT 59.351 34.615 0.00 0.00 38.90 2.24
2113 2216 6.955963 CAGTGAATAAGTCATTTGCGTAGTTC 59.044 38.462 0.00 0.00 38.90 3.01
2114 2217 6.874134 AGTGAATAAGTCATTTGCGTAGTTCT 59.126 34.615 0.00 0.00 38.90 3.01
2115 2218 8.033038 AGTGAATAAGTCATTTGCGTAGTTCTA 58.967 33.333 0.00 0.00 38.90 2.10
2116 2219 8.818057 GTGAATAAGTCATTTGCGTAGTTCTAT 58.182 33.333 0.00 0.00 38.90 1.98
2117 2220 9.031360 TGAATAAGTCATTTGCGTAGTTCTATC 57.969 33.333 0.00 0.00 0.00 2.08
2118 2221 9.250624 GAATAAGTCATTTGCGTAGTTCTATCT 57.749 33.333 0.00 0.00 0.00 1.98
2121 2224 8.997621 AAGTCATTTGCGTAGTTCTATCTAAA 57.002 30.769 0.00 0.00 0.00 1.85
2122 2225 9.601217 AAGTCATTTGCGTAGTTCTATCTAAAT 57.399 29.630 0.00 0.00 0.00 1.40
2180 2283 9.790389 AGAAACTACATTCGTGTAGAAATCTAG 57.210 33.333 19.23 0.00 43.16 2.43
2181 2284 9.570488 GAAACTACATTCGTGTAGAAATCTAGT 57.430 33.333 19.23 0.00 43.16 2.57
2182 2285 8.912787 AACTACATTCGTGTAGAAATCTAGTG 57.087 34.615 19.23 0.00 43.16 2.74
2183 2286 8.277490 ACTACATTCGTGTAGAAATCTAGTGA 57.723 34.615 19.23 0.00 43.16 3.41
2184 2287 8.904834 ACTACATTCGTGTAGAAATCTAGTGAT 58.095 33.333 19.23 0.00 43.16 3.06
2236 2339 7.857734 TTAATTGCTTAAATCGATGACCTGA 57.142 32.000 0.00 0.00 0.00 3.86
2237 2340 6.757897 AATTGCTTAAATCGATGACCTGAA 57.242 33.333 0.00 0.00 0.00 3.02
2238 2341 6.757897 ATTGCTTAAATCGATGACCTGAAA 57.242 33.333 0.00 0.00 0.00 2.69
2239 2342 5.545658 TGCTTAAATCGATGACCTGAAAC 57.454 39.130 0.00 0.00 0.00 2.78
2240 2343 5.245531 TGCTTAAATCGATGACCTGAAACT 58.754 37.500 0.00 0.00 0.00 2.66
2241 2344 6.403049 TGCTTAAATCGATGACCTGAAACTA 58.597 36.000 0.00 0.00 0.00 2.24
2242 2345 6.312918 TGCTTAAATCGATGACCTGAAACTAC 59.687 38.462 0.00 0.00 0.00 2.73
2243 2346 6.508088 GCTTAAATCGATGACCTGAAACTACG 60.508 42.308 0.00 0.00 0.00 3.51
2244 2347 2.273370 TCGATGACCTGAAACTACGC 57.727 50.000 0.00 0.00 0.00 4.42
2245 2348 0.914551 CGATGACCTGAAACTACGCG 59.085 55.000 3.53 3.53 0.00 6.01
2246 2349 1.466866 CGATGACCTGAAACTACGCGA 60.467 52.381 15.93 0.00 0.00 5.87
2247 2350 2.602878 GATGACCTGAAACTACGCGAA 58.397 47.619 15.93 0.00 0.00 4.70
2248 2351 2.736144 TGACCTGAAACTACGCGAAT 57.264 45.000 15.93 0.00 0.00 3.34
2249 2352 2.333926 TGACCTGAAACTACGCGAATG 58.666 47.619 15.93 4.47 0.00 2.67
2250 2353 2.029739 TGACCTGAAACTACGCGAATGA 60.030 45.455 15.93 0.00 0.00 2.57
2251 2354 2.334838 ACCTGAAACTACGCGAATGAC 58.665 47.619 15.93 0.00 0.00 3.06
2252 2355 2.029290 ACCTGAAACTACGCGAATGACT 60.029 45.455 15.93 0.00 0.00 3.41
2253 2356 2.993899 CCTGAAACTACGCGAATGACTT 59.006 45.455 15.93 0.00 0.00 3.01
2254 2357 4.171005 CCTGAAACTACGCGAATGACTTA 58.829 43.478 15.93 0.00 0.00 2.24
2255 2358 4.804139 CCTGAAACTACGCGAATGACTTAT 59.196 41.667 15.93 0.00 0.00 1.73
2256 2359 5.291128 CCTGAAACTACGCGAATGACTTATT 59.709 40.000 15.93 0.00 0.00 1.40
2257 2360 6.327177 TGAAACTACGCGAATGACTTATTC 57.673 37.500 15.93 5.21 41.46 1.75
2258 2361 5.865013 TGAAACTACGCGAATGACTTATTCA 59.135 36.000 15.93 7.75 44.42 2.57
2259 2362 5.697848 AACTACGCGAATGACTTATTCAC 57.302 39.130 15.93 0.00 44.42 3.18
2260 2363 4.110482 ACTACGCGAATGACTTATTCACC 58.890 43.478 15.93 0.00 44.42 4.02
2261 2364 3.247006 ACGCGAATGACTTATTCACCT 57.753 42.857 15.93 0.00 44.42 4.00
2262 2365 4.380841 ACGCGAATGACTTATTCACCTA 57.619 40.909 15.93 0.00 44.42 3.08
2263 2366 4.360563 ACGCGAATGACTTATTCACCTAG 58.639 43.478 15.93 0.00 44.42 3.02
2264 2367 4.097437 ACGCGAATGACTTATTCACCTAGA 59.903 41.667 15.93 0.00 44.42 2.43
2265 2368 5.221263 ACGCGAATGACTTATTCACCTAGAT 60.221 40.000 15.93 0.00 44.42 1.98
2266 2369 5.117745 CGCGAATGACTTATTCACCTAGATG 59.882 44.000 0.00 0.00 44.42 2.90
2267 2370 5.406780 GCGAATGACTTATTCACCTAGATGG 59.593 44.000 0.00 0.00 44.42 3.51
2268 2371 6.738731 GCGAATGACTTATTCACCTAGATGGA 60.739 42.308 0.00 0.00 44.42 3.41
2269 2372 6.865726 CGAATGACTTATTCACCTAGATGGAG 59.134 42.308 0.00 0.00 44.42 3.86
2270 2373 6.678568 ATGACTTATTCACCTAGATGGAGG 57.321 41.667 0.00 0.00 42.89 4.30
2279 2382 3.784511 CCTAGATGGAGGTAGTACCGA 57.215 52.381 13.76 2.62 44.90 4.69
2346 2449 1.624336 ACCGTGCCACTCAGTTACTA 58.376 50.000 0.00 0.00 0.00 1.82
2359 2466 1.109609 GTTACTACTCCTCCCCACCG 58.890 60.000 0.00 0.00 0.00 4.94
2497 2613 1.559149 CTTTTGCACGCCATTGCCAC 61.559 55.000 0.00 0.00 42.25 5.01
2500 2616 3.673484 GCACGCCATTGCCACACT 61.673 61.111 0.00 0.00 36.42 3.55
2504 2620 3.070576 GCCATTGCCACACTCCCC 61.071 66.667 0.00 0.00 0.00 4.81
2505 2621 2.751436 CCATTGCCACACTCCCCG 60.751 66.667 0.00 0.00 0.00 5.73
2507 2623 3.650950 ATTGCCACACTCCCCGCT 61.651 61.111 0.00 0.00 0.00 5.52
2508 2624 3.628646 ATTGCCACACTCCCCGCTC 62.629 63.158 0.00 0.00 0.00 5.03
2547 2689 4.443857 CTAGCATAGCAGCGGCAA 57.556 55.556 12.44 0.00 44.61 4.52
2737 2879 2.433491 TGGAATTCCACCGCGACG 60.433 61.111 23.63 0.00 42.01 5.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 4.512571 GGTATGTGTACCTTGTCGTTGTTT 59.487 41.667 0.00 0.00 45.78 2.83
101 102 8.538701 TGGCTATCATTGTGAAAATAATTTGGT 58.461 29.630 0.00 0.00 0.00 3.67
120 121 1.193203 CGTCATTCACGCATGGCTATC 59.807 52.381 0.00 0.00 42.87 2.08
251 252 6.540189 AGAATTACTTGTCTCGGAAATGGATG 59.460 38.462 0.00 0.00 0.00 3.51
253 254 5.874810 CAGAATTACTTGTCTCGGAAATGGA 59.125 40.000 0.00 0.00 0.00 3.41
254 255 5.874810 TCAGAATTACTTGTCTCGGAAATGG 59.125 40.000 0.00 0.00 0.00 3.16
255 256 6.968131 TCAGAATTACTTGTCTCGGAAATG 57.032 37.500 0.00 0.00 0.00 2.32
257 258 5.404366 CGTTCAGAATTACTTGTCTCGGAAA 59.596 40.000 0.00 0.00 0.00 3.13
259 260 4.482386 CGTTCAGAATTACTTGTCTCGGA 58.518 43.478 0.00 0.00 0.00 4.55
260 261 3.612860 CCGTTCAGAATTACTTGTCTCGG 59.387 47.826 0.00 0.00 0.00 4.63
261 262 4.482386 TCCGTTCAGAATTACTTGTCTCG 58.518 43.478 0.00 0.00 0.00 4.04
262 263 4.865365 CCTCCGTTCAGAATTACTTGTCTC 59.135 45.833 0.00 0.00 0.00 3.36
263 264 4.322801 CCCTCCGTTCAGAATTACTTGTCT 60.323 45.833 0.00 0.00 0.00 3.41
264 265 3.933332 CCCTCCGTTCAGAATTACTTGTC 59.067 47.826 0.00 0.00 0.00 3.18
265 266 3.581332 TCCCTCCGTTCAGAATTACTTGT 59.419 43.478 0.00 0.00 0.00 3.16
266 267 4.184629 CTCCCTCCGTTCAGAATTACTTG 58.815 47.826 0.00 0.00 0.00 3.16
267 268 3.838903 ACTCCCTCCGTTCAGAATTACTT 59.161 43.478 0.00 0.00 0.00 2.24
268 269 3.442076 ACTCCCTCCGTTCAGAATTACT 58.558 45.455 0.00 0.00 0.00 2.24
269 270 3.889520 ACTCCCTCCGTTCAGAATTAC 57.110 47.619 0.00 0.00 0.00 1.89
271 272 3.170717 TGTACTCCCTCCGTTCAGAATT 58.829 45.455 0.00 0.00 0.00 2.17
272 273 2.816411 TGTACTCCCTCCGTTCAGAAT 58.184 47.619 0.00 0.00 0.00 2.40
273 274 2.297698 TGTACTCCCTCCGTTCAGAA 57.702 50.000 0.00 0.00 0.00 3.02
274 275 2.526888 ATGTACTCCCTCCGTTCAGA 57.473 50.000 0.00 0.00 0.00 3.27
275 276 3.021695 TGTATGTACTCCCTCCGTTCAG 58.978 50.000 0.00 0.00 0.00 3.02
276 277 3.090210 TGTATGTACTCCCTCCGTTCA 57.910 47.619 0.00 0.00 0.00 3.18
278 279 4.091549 TCTTTGTATGTACTCCCTCCGTT 58.908 43.478 0.00 0.00 0.00 4.44
279 280 3.705051 TCTTTGTATGTACTCCCTCCGT 58.295 45.455 0.00 0.00 0.00 4.69
281 282 7.610305 TCATTTTTCTTTGTATGTACTCCCTCC 59.390 37.037 0.00 0.00 0.00 4.30
282 283 8.561738 TCATTTTTCTTTGTATGTACTCCCTC 57.438 34.615 0.00 0.00 0.00 4.30
284 285 8.237267 CACTCATTTTTCTTTGTATGTACTCCC 58.763 37.037 0.00 0.00 0.00 4.30
392 421 8.403236 GTTTGTTTTATCACACTGTACTTCCTT 58.597 33.333 0.00 0.00 0.00 3.36
394 423 7.642586 GTGTTTGTTTTATCACACTGTACTTCC 59.357 37.037 0.00 0.00 37.21 3.46
396 425 8.276252 AGTGTTTGTTTTATCACACTGTACTT 57.724 30.769 3.06 0.00 46.41 2.24
397 426 7.859325 AGTGTTTGTTTTATCACACTGTACT 57.141 32.000 3.06 0.00 46.41 2.73
403 432 7.540745 AGTGTTTGAGTGTTTGTTTTATCACAC 59.459 33.333 0.00 0.00 39.94 3.82
404 433 7.598278 AGTGTTTGAGTGTTTGTTTTATCACA 58.402 30.769 0.00 0.00 33.84 3.58
405 434 9.730420 ATAGTGTTTGAGTGTTTGTTTTATCAC 57.270 29.630 0.00 0.00 0.00 3.06
444 473 7.040062 ACAGCTAGCTAGTTTATACTCCATCAG 60.040 40.741 18.86 0.45 35.78 2.90
449 478 5.302313 ACCACAGCTAGCTAGTTTATACTCC 59.698 44.000 18.86 2.10 35.78 3.85
549 578 1.982073 GCAATTACGCGCAAGAGCCT 61.982 55.000 5.73 0.00 42.78 4.58
550 579 1.583709 GCAATTACGCGCAAGAGCC 60.584 57.895 5.73 0.00 42.78 4.70
551 580 0.248215 ATGCAATTACGCGCAAGAGC 60.248 50.000 5.73 8.89 42.37 4.09
554 583 0.098552 TCCATGCAATTACGCGCAAG 59.901 50.000 5.73 0.00 42.37 4.01
571 600 6.952773 AGATAGAGTCATGTACTTCTGTCC 57.047 41.667 0.00 0.00 39.07 4.02
577 606 9.026121 ACAGTTACAAGATAGAGTCATGTACTT 57.974 33.333 0.00 0.00 39.84 2.24
583 612 5.395768 GGCCACAGTTACAAGATAGAGTCAT 60.396 44.000 0.00 0.00 0.00 3.06
587 616 3.197766 TGGGCCACAGTTACAAGATAGAG 59.802 47.826 0.00 0.00 0.00 2.43
593 622 1.000274 GCTTTGGGCCACAGTTACAAG 60.000 52.381 20.23 13.59 34.27 3.16
595 624 0.106469 TGCTTTGGGCCACAGTTACA 60.106 50.000 20.23 7.85 40.92 2.41
596 625 0.598065 CTGCTTTGGGCCACAGTTAC 59.402 55.000 20.23 5.31 40.92 2.50
597 626 1.178534 GCTGCTTTGGGCCACAGTTA 61.179 55.000 20.23 9.57 40.92 2.24
598 627 2.501602 GCTGCTTTGGGCCACAGTT 61.502 57.895 20.23 0.00 40.92 3.16
599 628 2.914097 GCTGCTTTGGGCCACAGT 60.914 61.111 20.23 0.00 40.92 3.55
600 629 3.688159 GGCTGCTTTGGGCCACAG 61.688 66.667 15.44 15.44 46.84 3.66
607 638 1.134907 CATTTGGCTAGGCTGCTTTGG 60.135 52.381 18.18 0.00 0.00 3.28
608 639 1.134907 CCATTTGGCTAGGCTGCTTTG 60.135 52.381 18.18 7.86 0.00 2.77
630 661 4.415332 AGCGTCCGCCACACTACG 62.415 66.667 8.23 0.00 43.17 3.51
644 675 2.493973 GCTGGACTCTGGAGAGCG 59.506 66.667 3.45 0.00 45.79 5.03
645 676 2.493973 CGCTGGACTCTGGAGAGC 59.506 66.667 3.45 2.63 45.79 4.09
647 678 0.551396 TATCCGCTGGACTCTGGAGA 59.449 55.000 4.49 0.00 32.98 3.71
648 679 1.543802 GATATCCGCTGGACTCTGGAG 59.456 57.143 0.00 0.00 32.98 3.86
649 680 1.133482 TGATATCCGCTGGACTCTGGA 60.133 52.381 0.00 0.00 32.98 3.86
650 681 1.332195 TGATATCCGCTGGACTCTGG 58.668 55.000 0.00 0.00 32.98 3.86
651 682 2.353505 CCATGATATCCGCTGGACTCTG 60.354 54.545 9.42 2.43 32.98 3.35
653 684 1.895798 TCCATGATATCCGCTGGACTC 59.104 52.381 12.40 1.85 32.98 3.36
654 685 2.015456 TCCATGATATCCGCTGGACT 57.985 50.000 12.40 0.00 32.98 3.85
656 687 0.976641 GGTCCATGATATCCGCTGGA 59.023 55.000 12.40 12.40 35.46 3.86
657 688 0.686789 TGGTCCATGATATCCGCTGG 59.313 55.000 0.00 5.12 0.00 4.85
658 689 1.800805 GTGGTCCATGATATCCGCTG 58.199 55.000 0.00 0.00 0.00 5.18
659 690 0.318441 CGTGGTCCATGATATCCGCT 59.682 55.000 4.96 0.00 0.00 5.52
660 691 1.291877 GCGTGGTCCATGATATCCGC 61.292 60.000 15.72 10.02 0.00 5.54
661 692 0.670546 GGCGTGGTCCATGATATCCG 60.671 60.000 15.72 3.31 0.00 4.18
662 693 0.321653 GGGCGTGGTCCATGATATCC 60.322 60.000 15.72 6.12 0.00 2.59
665 696 2.061578 ACGGGCGTGGTCCATGATA 61.062 57.895 15.72 0.00 0.00 2.15
690 721 1.369625 GTAATGGCTGGTGTTCTCCG 58.630 55.000 0.00 0.00 0.00 4.63
692 723 1.066430 TCGGTAATGGCTGGTGTTCTC 60.066 52.381 0.00 0.00 0.00 2.87
695 726 1.202830 TGTTCGGTAATGGCTGGTGTT 60.203 47.619 0.00 0.00 0.00 3.32
709 740 2.728015 GGCGGCGTTTTTGTTCGG 60.728 61.111 9.37 0.00 0.00 4.30
741 772 8.463607 TCTTTTCTTTTGACGTGATTTTACCTT 58.536 29.630 0.00 0.00 0.00 3.50
779 811 4.093011 TGGGGTATTTGTCTGGGATTTTG 58.907 43.478 0.00 0.00 0.00 2.44
802 834 2.418746 GCTGGCAGGAGAAGATTTCGTA 60.419 50.000 17.64 0.00 34.02 3.43
823 855 0.749454 GCTGGGATTGTGCCTACTGG 60.749 60.000 0.00 0.00 0.00 4.00
850 882 2.163509 GAAAGGAAGGTTCTTGGCTCC 58.836 52.381 0.00 0.00 0.00 4.70
857 889 5.130350 TCGTTTTGATGAAAGGAAGGTTCT 58.870 37.500 0.00 0.00 38.71 3.01
902 945 8.869109 TGAGATCCTAAAATTTCATGGTGTTTT 58.131 29.630 0.00 0.90 0.00 2.43
903 946 8.421249 TGAGATCCTAAAATTTCATGGTGTTT 57.579 30.769 0.00 0.00 0.00 2.83
904 947 8.421249 TTGAGATCCTAAAATTTCATGGTGTT 57.579 30.769 0.00 0.00 0.00 3.32
905 948 8.421249 TTTGAGATCCTAAAATTTCATGGTGT 57.579 30.769 0.00 0.00 0.00 4.16
906 949 9.709495 TTTTTGAGATCCTAAAATTTCATGGTG 57.291 29.630 5.78 0.00 0.00 4.17
1029 1073 3.840124 AATAAATGGGAGGAGACGGAC 57.160 47.619 0.00 0.00 0.00 4.79
1114 1163 2.502492 ATGGCGAGACCGGGATCTG 61.502 63.158 6.32 1.26 43.94 2.90
1381 1436 3.692406 GGGTCTTCACCGCCTCGT 61.692 66.667 0.00 0.00 44.91 4.18
1514 1569 4.083862 AAGCCGAACGCCTCCTCC 62.084 66.667 0.00 0.00 38.78 4.30
1547 1602 2.818169 GGCGCAGGGGATGGTGATA 61.818 63.158 10.83 0.00 0.00 2.15
1603 1658 1.078356 GCGAACCCCTTCTTCCCTC 60.078 63.158 0.00 0.00 0.00 4.30
1604 1659 2.603652 GGCGAACCCCTTCTTCCCT 61.604 63.158 0.00 0.00 0.00 4.20
1806 1879 3.702330 AGGAAAAAGAAAAAGAACGGCG 58.298 40.909 4.80 4.80 0.00 6.46
1809 1882 8.915654 CAATCCATAGGAAAAAGAAAAAGAACG 58.084 33.333 0.00 0.00 34.34 3.95
1826 1899 4.641541 TGAACTTGCATCCACAATCCATAG 59.358 41.667 0.00 0.00 0.00 2.23
1827 1900 4.598022 TGAACTTGCATCCACAATCCATA 58.402 39.130 0.00 0.00 0.00 2.74
1828 1901 3.433343 TGAACTTGCATCCACAATCCAT 58.567 40.909 0.00 0.00 0.00 3.41
1829 1902 2.874014 TGAACTTGCATCCACAATCCA 58.126 42.857 0.00 0.00 0.00 3.41
1830 1903 3.698040 AGATGAACTTGCATCCACAATCC 59.302 43.478 0.00 0.00 44.47 3.01
1831 1904 4.397103 TGAGATGAACTTGCATCCACAATC 59.603 41.667 0.00 0.00 44.47 2.67
1833 1906 3.753815 TGAGATGAACTTGCATCCACAA 58.246 40.909 0.00 0.00 44.47 3.33
1834 1907 3.008266 TCTGAGATGAACTTGCATCCACA 59.992 43.478 0.00 0.00 44.47 4.17
1838 1940 6.050432 AGAGATTCTGAGATGAACTTGCATC 58.950 40.000 0.00 0.00 43.88 3.91
1864 1966 4.142491 TGTCAACAGCAAACGATGAAACTT 60.142 37.500 0.00 0.00 0.00 2.66
1866 1968 3.690422 TGTCAACAGCAAACGATGAAAC 58.310 40.909 0.00 0.00 0.00 2.78
1898 2000 4.415332 GCTCGCCGGAGTTCGTCA 62.415 66.667 5.05 0.00 42.53 4.35
1923 2025 2.125269 AGAAATTCGTCGGCCCGG 60.125 61.111 1.90 0.00 0.00 5.73
2072 2175 1.671845 CACTGAGACGGAGGTAGTAGC 59.328 57.143 0.00 0.00 0.00 3.58
2076 2179 4.641094 ACTTATTCACTGAGACGGAGGTAG 59.359 45.833 0.00 0.00 0.00 3.18
2077 2180 4.597004 ACTTATTCACTGAGACGGAGGTA 58.403 43.478 0.00 0.00 0.00 3.08
2079 2182 3.444034 TGACTTATTCACTGAGACGGAGG 59.556 47.826 0.00 0.00 0.00 4.30
2080 2183 4.703645 TGACTTATTCACTGAGACGGAG 57.296 45.455 0.00 0.00 0.00 4.63
2081 2184 5.661056 AATGACTTATTCACTGAGACGGA 57.339 39.130 0.00 0.00 36.92 4.69
2082 2185 5.446473 GCAAATGACTTATTCACTGAGACGG 60.446 44.000 0.00 0.00 36.92 4.79
2083 2186 5.554636 GCAAATGACTTATTCACTGAGACG 58.445 41.667 0.00 0.00 36.92 4.18
2084 2187 5.120830 ACGCAAATGACTTATTCACTGAGAC 59.879 40.000 0.00 0.00 36.92 3.36
2085 2188 5.237815 ACGCAAATGACTTATTCACTGAGA 58.762 37.500 0.00 0.00 36.92 3.27
2086 2189 5.536554 ACGCAAATGACTTATTCACTGAG 57.463 39.130 0.00 0.00 36.92 3.35
2087 2190 6.163476 ACTACGCAAATGACTTATTCACTGA 58.837 36.000 0.00 0.00 36.92 3.41
2088 2191 6.408858 ACTACGCAAATGACTTATTCACTG 57.591 37.500 0.00 0.00 36.92 3.66
2089 2192 6.874134 AGAACTACGCAAATGACTTATTCACT 59.126 34.615 0.00 0.00 36.92 3.41
2090 2193 7.061752 AGAACTACGCAAATGACTTATTCAC 57.938 36.000 0.00 0.00 36.92 3.18
2091 2194 8.942338 ATAGAACTACGCAAATGACTTATTCA 57.058 30.769 0.00 0.00 39.11 2.57
2092 2195 9.250624 AGATAGAACTACGCAAATGACTTATTC 57.749 33.333 0.00 0.00 0.00 1.75
2096 2199 8.997621 TTTAGATAGAACTACGCAAATGACTT 57.002 30.769 0.00 0.00 0.00 3.01
2210 2313 8.902806 TCAGGTCATCGATTTAAGCAATTAAAT 58.097 29.630 0.00 5.83 39.16 1.40
2211 2314 8.275015 TCAGGTCATCGATTTAAGCAATTAAA 57.725 30.769 0.00 0.00 0.00 1.52
2212 2315 7.857734 TCAGGTCATCGATTTAAGCAATTAA 57.142 32.000 0.00 0.00 0.00 1.40
2213 2316 7.857734 TTCAGGTCATCGATTTAAGCAATTA 57.142 32.000 0.00 0.00 0.00 1.40
2214 2317 6.757897 TTCAGGTCATCGATTTAAGCAATT 57.242 33.333 0.00 0.00 0.00 2.32
2215 2318 6.375455 AGTTTCAGGTCATCGATTTAAGCAAT 59.625 34.615 0.00 0.00 0.00 3.56
2216 2319 5.705441 AGTTTCAGGTCATCGATTTAAGCAA 59.295 36.000 0.00 0.00 0.00 3.91
2217 2320 5.245531 AGTTTCAGGTCATCGATTTAAGCA 58.754 37.500 0.00 0.00 0.00 3.91
2218 2321 5.803020 AGTTTCAGGTCATCGATTTAAGC 57.197 39.130 0.00 0.00 0.00 3.09
2219 2322 6.508088 GCGTAGTTTCAGGTCATCGATTTAAG 60.508 42.308 0.00 0.00 0.00 1.85
2220 2323 5.290158 GCGTAGTTTCAGGTCATCGATTTAA 59.710 40.000 0.00 0.00 0.00 1.52
2221 2324 4.802039 GCGTAGTTTCAGGTCATCGATTTA 59.198 41.667 0.00 0.00 0.00 1.40
2222 2325 3.617263 GCGTAGTTTCAGGTCATCGATTT 59.383 43.478 0.00 0.00 0.00 2.17
2223 2326 3.187700 GCGTAGTTTCAGGTCATCGATT 58.812 45.455 0.00 0.00 0.00 3.34
2224 2327 2.794981 CGCGTAGTTTCAGGTCATCGAT 60.795 50.000 0.00 0.00 0.00 3.59
2225 2328 1.466866 CGCGTAGTTTCAGGTCATCGA 60.467 52.381 0.00 0.00 0.00 3.59
2226 2329 0.914551 CGCGTAGTTTCAGGTCATCG 59.085 55.000 0.00 0.00 0.00 3.84
2227 2330 2.273370 TCGCGTAGTTTCAGGTCATC 57.727 50.000 5.77 0.00 0.00 2.92
2228 2331 2.736144 TTCGCGTAGTTTCAGGTCAT 57.264 45.000 5.77 0.00 0.00 3.06
2229 2332 2.029739 TCATTCGCGTAGTTTCAGGTCA 60.030 45.455 5.77 0.00 0.00 4.02
2230 2333 2.344741 GTCATTCGCGTAGTTTCAGGTC 59.655 50.000 5.77 0.00 0.00 3.85
2231 2334 2.029290 AGTCATTCGCGTAGTTTCAGGT 60.029 45.455 5.77 0.00 0.00 4.00
2232 2335 2.607187 AGTCATTCGCGTAGTTTCAGG 58.393 47.619 5.77 0.00 0.00 3.86
2233 2336 5.950965 ATAAGTCATTCGCGTAGTTTCAG 57.049 39.130 5.77 0.00 0.00 3.02
2234 2337 5.865013 TGAATAAGTCATTCGCGTAGTTTCA 59.135 36.000 5.77 2.30 45.25 2.69
2235 2338 6.176453 GTGAATAAGTCATTCGCGTAGTTTC 58.824 40.000 5.77 0.00 45.25 2.78
2236 2339 6.091123 GTGAATAAGTCATTCGCGTAGTTT 57.909 37.500 5.77 0.00 45.25 2.66
2237 2340 5.697848 GTGAATAAGTCATTCGCGTAGTT 57.302 39.130 5.77 2.59 45.25 2.24
2244 2347 6.749139 TCCATCTAGGTGAATAAGTCATTCG 58.251 40.000 3.99 0.00 40.28 3.34
2245 2348 7.158021 CCTCCATCTAGGTGAATAAGTCATTC 58.842 42.308 3.99 0.00 38.90 2.67
2246 2349 7.072263 CCTCCATCTAGGTGAATAAGTCATT 57.928 40.000 3.99 0.00 38.90 2.57
2247 2350 6.678568 CCTCCATCTAGGTGAATAAGTCAT 57.321 41.667 3.99 0.00 38.90 3.06
2259 2362 3.410508 GTCGGTACTACCTCCATCTAGG 58.589 54.545 3.68 0.00 42.82 3.02
2260 2363 3.065655 CGTCGGTACTACCTCCATCTAG 58.934 54.545 3.68 0.00 35.66 2.43
2261 2364 2.808202 GCGTCGGTACTACCTCCATCTA 60.808 54.545 3.68 0.00 35.66 1.98
2262 2365 1.964552 CGTCGGTACTACCTCCATCT 58.035 55.000 3.68 0.00 35.66 2.90
2263 2366 0.310232 GCGTCGGTACTACCTCCATC 59.690 60.000 3.68 0.00 35.66 3.51
2264 2367 1.105759 GGCGTCGGTACTACCTCCAT 61.106 60.000 3.68 0.00 35.66 3.41
2265 2368 1.750399 GGCGTCGGTACTACCTCCA 60.750 63.158 3.68 0.00 35.66 3.86
2266 2369 1.105759 ATGGCGTCGGTACTACCTCC 61.106 60.000 3.68 0.88 35.66 4.30
2267 2370 0.743097 AATGGCGTCGGTACTACCTC 59.257 55.000 3.68 0.00 35.66 3.85
2268 2371 0.458669 CAATGGCGTCGGTACTACCT 59.541 55.000 3.68 0.00 35.66 3.08
2269 2372 0.457035 TCAATGGCGTCGGTACTACC 59.543 55.000 0.00 0.00 34.05 3.18
2270 2373 2.282701 TTCAATGGCGTCGGTACTAC 57.717 50.000 0.00 0.00 0.00 2.73
2271 2374 3.119065 TGAATTCAATGGCGTCGGTACTA 60.119 43.478 5.45 0.00 0.00 1.82
2272 2375 2.277084 GAATTCAATGGCGTCGGTACT 58.723 47.619 0.00 0.00 0.00 2.73
2273 2376 2.004017 TGAATTCAATGGCGTCGGTAC 58.996 47.619 5.45 0.00 0.00 3.34
2274 2377 2.388310 TGAATTCAATGGCGTCGGTA 57.612 45.000 5.45 0.00 0.00 4.02
2275 2378 1.401552 CATGAATTCAATGGCGTCGGT 59.598 47.619 13.09 0.00 0.00 4.69
2276 2379 1.861202 GCATGAATTCAATGGCGTCGG 60.861 52.381 13.09 0.00 0.00 4.79
2277 2380 1.064505 AGCATGAATTCAATGGCGTCG 59.935 47.619 13.09 0.00 0.00 5.12
2278 2381 2.857592 AGCATGAATTCAATGGCGTC 57.142 45.000 13.09 0.00 0.00 5.19
2279 2382 4.581824 AGATAAGCATGAATTCAATGGCGT 59.418 37.500 13.09 15.92 0.00 5.68
2359 2466 0.248565 GTACCGTTCCCACCTTCCTC 59.751 60.000 0.00 0.00 0.00 3.71
2482 2598 3.976000 GTGTGGCAATGGCGTGCA 61.976 61.111 14.04 0.00 46.81 4.57
2497 2613 3.506059 CTATGGCGAGCGGGGAGTG 62.506 68.421 0.00 0.00 0.00 3.51
2536 2678 2.432456 CTGTCGTTGCCGCTGCTA 60.432 61.111 0.70 0.00 38.71 3.49
2547 2689 2.661866 GTGCTCGTTGGCTGTCGT 60.662 61.111 0.00 0.00 0.00 4.34
2700 2842 2.405191 GGAGAAAAGGATGCGCGC 59.595 61.111 27.26 27.26 0.00 6.86
2701 2843 2.703409 CGGAGAAAAGGATGCGCG 59.297 61.111 0.00 0.00 0.00 6.86
2704 2846 0.035439 TCCACCGGAGAAAAGGATGC 60.035 55.000 9.46 0.00 0.00 3.91
2706 2848 3.621558 GAATTCCACCGGAGAAAAGGAT 58.378 45.455 9.46 0.00 31.21 3.24
2707 2849 2.290705 GGAATTCCACCGGAGAAAAGGA 60.291 50.000 20.04 2.17 35.64 3.36
2708 2850 2.092323 GGAATTCCACCGGAGAAAAGG 58.908 52.381 20.04 0.00 35.64 3.11
2709 2851 2.790433 TGGAATTCCACCGGAGAAAAG 58.210 47.619 23.63 0.00 42.01 2.27


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

AutoCloner maintained by Alex Coulton.