Multiple sequence alignment - TraesCS2A01G152700

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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 TraesCS2A01G152700 chr2A 100.000 3698 0 0 1 3698 100827650 100823953 0.000000e+00 6830.0
1 TraesCS2A01G152700 chr2A 85.794 894 76 22 1432 2306 100971671 100970810 0.000000e+00 900.0
2 TraesCS2A01G152700 chr2A 91.586 309 26 0 1049 1357 100971981 100971673 9.490000e-116 427.0
3 TraesCS2A01G152700 chr2A 76.286 447 46 32 63 489 100974130 100973724 2.270000e-42 183.0
4 TraesCS2A01G152700 chr2A 90.991 111 7 2 572 681 100972683 100972575 2.980000e-31 147.0
5 TraesCS2A01G152700 chr2A 79.720 143 22 6 1704 1842 265274764 265274625 3.040000e-16 97.1
6 TraesCS2A01G152700 chr2B 89.185 1840 97 56 60 1854 152845851 152844069 0.000000e+00 2202.0
7 TraesCS2A01G152700 chr2B 90.879 1502 70 15 1849 3343 152843899 152842458 0.000000e+00 1953.0
8 TraesCS2A01G152700 chr2B 87.116 1203 97 32 953 2134 153127420 153126255 0.000000e+00 1310.0
9 TraesCS2A01G152700 chr2B 86.697 436 26 17 357 773 153128012 153127590 4.350000e-124 455.0
10 TraesCS2A01G152700 chr2B 86.806 144 17 2 106 247 153129231 153129088 3.820000e-35 159.0
11 TraesCS2A01G152700 chr2B 79.021 143 23 6 1704 1842 266962079 266961940 1.410000e-14 91.6
12 TraesCS2A01G152700 chr2D 91.419 1212 60 19 2367 3558 101872125 101870938 0.000000e+00 1622.0
13 TraesCS2A01G152700 chr2D 90.187 1121 75 17 363 1470 101874045 101872947 0.000000e+00 1428.0
14 TraesCS2A01G152700 chr2D 93.705 842 32 4 1507 2342 101872946 101872120 0.000000e+00 1242.0
15 TraesCS2A01G152700 chr2D 86.622 897 67 17 1432 2306 101956749 101955884 0.000000e+00 942.0
16 TraesCS2A01G152700 chr2D 90.615 309 29 0 1049 1357 101957059 101956751 9.560000e-111 411.0
17 TraesCS2A01G152700 chr2D 90.845 142 13 0 106 247 101874968 101874827 1.360000e-44 191.0
18 TraesCS2A01G152700 chr2D 79.211 279 23 17 431 681 101958301 101958030 1.060000e-35 161.0
19 TraesCS2A01G152700 chr2D 84.158 101 15 1 1704 1803 211199116 211199216 3.040000e-16 97.1
20 TraesCS2A01G152700 chr4D 88.281 256 15 7 461 702 498413831 498413577 3.610000e-75 292.0
21 TraesCS2A01G152700 chr7B 89.116 147 15 1 1575 1720 452961927 452962073 8.160000e-42 182.0
22 TraesCS2A01G152700 chr7B 90.179 112 11 0 1210 1321 452961720 452961831 2.980000e-31 147.0
23 TraesCS2A01G152700 chr7A 90.071 141 13 1 1581 1720 486237288 486237148 8.160000e-42 182.0
24 TraesCS2A01G152700 chr7A 89.286 112 12 0 1210 1321 486237542 486237431 1.380000e-29 141.0
25 TraesCS2A01G152700 chr7D 88.435 147 16 1 1575 1720 436114182 436114328 3.800000e-40 176.0
26 TraesCS2A01G152700 chr7D 90.179 112 11 0 1210 1321 436113988 436114099 2.980000e-31 147.0
27 TraesCS2A01G152700 chr3D 91.589 107 9 0 1595 1701 352367935 352367829 8.270000e-32 148.0


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 TraesCS2A01G152700 chr2A 100823953 100827650 3697 True 6830.000000 6830 100.000000 1 3698 1 chr2A.!!$R1 3697
1 TraesCS2A01G152700 chr2A 100970810 100974130 3320 True 414.250000 900 86.164250 63 2306 4 chr2A.!!$R3 2243
2 TraesCS2A01G152700 chr2B 152842458 152845851 3393 True 2077.500000 2202 90.032000 60 3343 2 chr2B.!!$R2 3283
3 TraesCS2A01G152700 chr2B 153126255 153129231 2976 True 641.333333 1310 86.873000 106 2134 3 chr2B.!!$R3 2028
4 TraesCS2A01G152700 chr2D 101870938 101874968 4030 True 1120.750000 1622 91.539000 106 3558 4 chr2D.!!$R1 3452
5 TraesCS2A01G152700 chr2D 101955884 101958301 2417 True 504.666667 942 85.482667 431 2306 3 chr2D.!!$R2 1875

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
523 2504 0.312102 GTTCCAGACAACTTGCAGCC 59.688 55.0 0.0 0.0 0.0 4.85 F
1922 4918 0.029567 CCGAGCTGATACTGTCGTCC 59.970 60.0 0.0 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2231 5243 1.002468 CTGTTGCTCGGGTTGTTCTTG 60.002 52.381 0.00 0.00 0.0 3.02 R
3634 6676 0.179148 CCAAATAACTTTCGCCGGGC 60.179 55.000 9.54 9.54 0.0 6.13 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
56 57 9.773328 TTTCTCGCAAAAGAAAACATAGATATG 57.227 29.630 4.04 0.00 41.17 1.78
57 58 8.946085 TTCTCGCAAAAGAAAACATAGATATGT 58.054 29.630 0.00 0.00 38.12 2.29
58 59 9.594478 TCTCGCAAAAGAAAACATAGATATGTA 57.406 29.630 5.94 0.00 45.55 2.29
98 99 6.727394 TGGATTTAGCAGTACCTACCAATTT 58.273 36.000 0.00 0.00 0.00 1.82
99 100 7.179269 TGGATTTAGCAGTACCTACCAATTTT 58.821 34.615 0.00 0.00 0.00 1.82
101 102 7.973944 GGATTTAGCAGTACCTACCAATTTTTG 59.026 37.037 0.00 0.00 0.00 2.44
102 103 8.644374 ATTTAGCAGTACCTACCAATTTTTGA 57.356 30.769 0.00 0.00 0.00 2.69
103 104 8.466617 TTTAGCAGTACCTACCAATTTTTGAA 57.533 30.769 0.00 0.00 0.00 2.69
104 105 6.327279 AGCAGTACCTACCAATTTTTGAAC 57.673 37.500 0.00 0.00 0.00 3.18
247 262 4.214119 ACTGTTGAATGACCGACAGAAATG 59.786 41.667 15.79 0.00 46.57 2.32
252 267 5.729510 TGAATGACCGACAGAAATGTATCA 58.270 37.500 0.00 0.00 0.00 2.15
253 268 6.348498 TGAATGACCGACAGAAATGTATCAT 58.652 36.000 0.00 0.00 0.00 2.45
260 282 7.500992 ACCGACAGAAATGTATCATTCAGTAT 58.499 34.615 0.00 0.00 0.00 2.12
300 322 9.480053 CTGTCAATAAATGTTTGTGATTCCTTT 57.520 29.630 0.00 0.00 0.00 3.11
311 333 5.643379 TGTGATTCCTTTTTCTACATGCC 57.357 39.130 0.00 0.00 0.00 4.40
453 1480 5.301805 TGGAGAATAGATGCATTACACGAGA 59.698 40.000 0.00 0.00 0.00 4.04
454 1481 5.861251 GGAGAATAGATGCATTACACGAGAG 59.139 44.000 0.00 0.00 0.00 3.20
455 1482 6.294231 GGAGAATAGATGCATTACACGAGAGA 60.294 42.308 0.00 0.00 0.00 3.10
456 1483 6.676950 AGAATAGATGCATTACACGAGAGAG 58.323 40.000 0.00 0.00 0.00 3.20
459 1486 3.894427 AGATGCATTACACGAGAGAGGAT 59.106 43.478 0.00 0.00 0.00 3.24
512 1561 1.266718 TCAATTGCTTGCGTTCCAGAC 59.733 47.619 0.00 0.00 32.11 3.51
523 2504 0.312102 GTTCCAGACAACTTGCAGCC 59.688 55.000 0.00 0.00 0.00 4.85
607 2609 1.138883 GCATGCAGCATCTGTGTGG 59.861 57.895 14.21 0.00 44.79 4.17
611 2613 2.338015 GCAGCATCTGTGTGGGTGG 61.338 63.158 0.00 0.00 33.43 4.61
612 2614 1.073722 CAGCATCTGTGTGGGTGGT 59.926 57.895 0.00 0.00 0.00 4.16
766 2772 2.093306 TTGTCTAATCAGCCCACACG 57.907 50.000 0.00 0.00 0.00 4.49
778 2784 4.627114 CACACGCACACGACGCAC 62.627 66.667 0.00 0.00 43.93 5.34
780 2786 4.627114 CACGCACACGACGCACAC 62.627 66.667 0.00 0.00 43.93 3.82
899 3635 3.017442 CAGTACTGACACTGGCTAGCTA 58.983 50.000 18.45 7.83 41.88 3.32
900 3636 3.066064 CAGTACTGACACTGGCTAGCTAG 59.934 52.174 25.03 25.03 41.88 3.42
927 3669 4.610905 CGTGTGTGTGTACTCTCTACACTC 60.611 50.000 12.87 10.34 45.77 3.51
928 3670 4.515944 GTGTGTGTGTACTCTCTACACTCT 59.484 45.833 12.87 0.00 45.77 3.24
929 3671 4.515567 TGTGTGTGTACTCTCTACACTCTG 59.484 45.833 12.87 0.00 45.77 3.35
934 3676 1.846007 ACTCTCTACACTCTGGGCTG 58.154 55.000 0.00 0.00 0.00 4.85
1064 3847 4.790861 GCTCCGTCGGTCGTTCCC 62.791 72.222 11.88 0.00 37.94 3.97
1155 3938 1.664302 GCGGCAAAGAAACTGAGCTTC 60.664 52.381 0.00 0.00 0.00 3.86
1421 4216 3.624861 CAGTAGCTTTCTGGCCAGTTATG 59.375 47.826 31.58 21.52 0.00 1.90
1422 4217 1.467920 AGCTTTCTGGCCAGTTATGC 58.532 50.000 31.58 28.23 0.00 3.14
1423 4218 1.005215 AGCTTTCTGGCCAGTTATGCT 59.995 47.619 31.58 29.63 0.00 3.79
1424 4219 2.239654 AGCTTTCTGGCCAGTTATGCTA 59.760 45.455 30.68 14.29 0.00 3.49
1493 4288 7.042950 TCCTTTTATGTGATGCAATTGATTGG 58.957 34.615 10.34 0.00 38.21 3.16
1502 4300 4.750952 TGCAATTGATTGGCAATGTTTG 57.249 36.364 19.07 17.25 46.25 2.93
1548 4363 6.366877 CAGTTTTGAAGTGCTAATTTGATGGG 59.633 38.462 0.00 0.00 0.00 4.00
1796 4611 5.567037 TCTGGAACTCCTTCATCAAGAAA 57.433 39.130 0.00 0.00 35.40 2.52
1922 4918 0.029567 CCGAGCTGATACTGTCGTCC 59.970 60.000 0.00 0.00 0.00 4.79
2036 5042 3.690280 TGCAGCGACGATGGGTCA 61.690 61.111 15.74 1.26 46.42 4.02
2108 5114 3.845259 TACCTGGATGCGGACGCC 61.845 66.667 14.61 0.00 41.09 5.68
2159 5165 1.362406 GCTCCAGCACGCTTAACTCC 61.362 60.000 0.00 0.00 41.59 3.85
2223 5235 2.203056 ACGAGCTGTGCTGCAACA 60.203 55.556 2.77 4.31 39.88 3.33
2224 5236 1.775039 GACGAGCTGTGCTGCAACAA 61.775 55.000 2.77 0.00 39.88 2.83
2225 5237 1.369689 CGAGCTGTGCTGCAACAAC 60.370 57.895 2.77 0.75 39.88 3.32
2226 5238 1.729276 GAGCTGTGCTGCAACAACA 59.271 52.632 2.77 0.00 39.88 3.33
2227 5239 0.101040 GAGCTGTGCTGCAACAACAA 59.899 50.000 2.77 0.00 39.88 2.83
2228 5240 0.179129 AGCTGTGCTGCAACAACAAC 60.179 50.000 2.77 0.00 37.57 3.32
2229 5241 0.458197 GCTGTGCTGCAACAACAACA 60.458 50.000 2.77 0.00 0.00 3.33
2230 5242 1.993542 CTGTGCTGCAACAACAACAA 58.006 45.000 2.77 0.00 0.00 2.83
2231 5243 1.655099 CTGTGCTGCAACAACAACAAC 59.345 47.619 2.77 0.00 0.00 3.32
2232 5244 1.000171 TGTGCTGCAACAACAACAACA 60.000 42.857 2.77 0.00 0.00 3.33
2233 5245 2.064762 GTGCTGCAACAACAACAACAA 58.935 42.857 2.77 0.00 0.00 2.83
2234 5246 2.092524 GTGCTGCAACAACAACAACAAG 59.907 45.455 2.77 0.00 0.00 3.16
2300 5315 1.975407 GAGCAGCAGCAACCACCAT 60.975 57.895 3.17 0.00 45.49 3.55
2549 5564 3.068024 TCAACTGGTGCTTGAATTGAACC 59.932 43.478 0.00 0.00 33.71 3.62
2552 5567 2.364970 CTGGTGCTTGAATTGAACCCAA 59.635 45.455 0.00 0.00 32.08 4.12
2553 5568 2.364970 TGGTGCTTGAATTGAACCCAAG 59.635 45.455 0.00 0.00 40.00 3.61
2554 5569 2.365293 GGTGCTTGAATTGAACCCAAGT 59.635 45.455 9.21 0.00 39.41 3.16
2555 5570 3.572255 GGTGCTTGAATTGAACCCAAGTA 59.428 43.478 9.21 3.62 39.41 2.24
2556 5571 4.546570 GTGCTTGAATTGAACCCAAGTAC 58.453 43.478 11.47 11.47 42.77 2.73
2668 5686 6.874288 ACGCGAGTTTATAATACTCCTAGT 57.126 37.500 15.93 12.28 46.40 2.57
2669 5687 7.969536 ACGCGAGTTTATAATACTCCTAGTA 57.030 36.000 15.93 0.00 46.40 1.82
2670 5688 8.027440 ACGCGAGTTTATAATACTCCTAGTAG 57.973 38.462 15.93 0.00 46.40 2.57
2671 5689 6.960431 CGCGAGTTTATAATACTCCTAGTAGC 59.040 42.308 0.00 12.69 39.03 3.58
2672 5690 7.148440 CGCGAGTTTATAATACTCCTAGTAGCT 60.148 40.741 0.00 0.00 39.03 3.32
2673 5691 9.160496 GCGAGTTTATAATACTCCTAGTAGCTA 57.840 37.037 15.87 0.00 39.03 3.32
2712 5730 5.598830 TGGTGAGGTTTTGGCTTGTAAATTA 59.401 36.000 0.00 0.00 0.00 1.40
2749 5767 7.010645 ACGTTCTCTCTTGTTTCTTTCTTTCTC 59.989 37.037 0.00 0.00 0.00 2.87
2750 5768 7.223777 CGTTCTCTCTTGTTTCTTTCTTTCTCT 59.776 37.037 0.00 0.00 0.00 3.10
2751 5769 8.547894 GTTCTCTCTTGTTTCTTTCTTTCTCTC 58.452 37.037 0.00 0.00 0.00 3.20
2752 5770 8.017418 TCTCTCTTGTTTCTTTCTTTCTCTCT 57.983 34.615 0.00 0.00 0.00 3.10
2876 5894 8.043710 GGATACATATATTACTTTGCTCCTGCT 58.956 37.037 0.00 0.00 40.48 4.24
2921 5939 9.968870 TTTTGCGTGGTTAATTAAATAAAGAGT 57.031 25.926 0.00 0.00 0.00 3.24
2922 5940 8.958175 TTGCGTGGTTAATTAAATAAAGAGTG 57.042 30.769 0.00 0.00 0.00 3.51
2923 5941 8.101654 TGCGTGGTTAATTAAATAAAGAGTGT 57.898 30.769 0.00 0.00 0.00 3.55
2924 5942 8.018520 TGCGTGGTTAATTAAATAAAGAGTGTG 58.981 33.333 0.00 0.00 0.00 3.82
2969 5987 1.760192 ATCAATCACAGGCAGCTTCC 58.240 50.000 0.00 0.00 0.00 3.46
2990 6008 2.004583 CGGACGTCTGGCTTTATCAA 57.995 50.000 16.99 0.00 0.00 2.57
3116 6138 2.050533 TGCGTGCGTCAATTTGGC 60.051 55.556 0.00 0.00 0.00 4.52
3141 6163 4.711399 TGATGATGATTGAGCTGTAAGGG 58.289 43.478 0.00 0.00 0.00 3.95
3148 6170 0.710588 TGAGCTGTAAGGGGAGAGGA 59.289 55.000 0.00 0.00 0.00 3.71
3149 6171 1.116308 GAGCTGTAAGGGGAGAGGAC 58.884 60.000 0.00 0.00 0.00 3.85
3150 6172 0.684805 AGCTGTAAGGGGAGAGGACG 60.685 60.000 0.00 0.00 0.00 4.79
3151 6173 0.971447 GCTGTAAGGGGAGAGGACGT 60.971 60.000 0.00 0.00 0.00 4.34
3226 6248 0.392461 TGGACCGGCTTAATCACAGC 60.392 55.000 0.00 0.00 36.45 4.40
3283 6305 6.019640 CGAAAAACATCACTGTGCTTTTGAAT 60.020 34.615 2.12 0.00 35.22 2.57
3309 6331 4.144297 TGTTAGAAGGTGCAGCTTTCATT 58.856 39.130 30.17 18.40 35.86 2.57
3344 6366 7.179269 TGCCTAGGTAGGTTGATTTTGTATTT 58.821 34.615 11.31 0.00 45.42 1.40
3350 6372 9.758651 AGGTAGGTTGATTTTGTATTTGTTTTC 57.241 29.630 0.00 0.00 0.00 2.29
3369 6396 8.371770 TGTTTTCTCTTCTTCTTCTTCTTAGC 57.628 34.615 0.00 0.00 0.00 3.09
3375 6402 2.496470 TCTTCTTCTTCTTAGCCGACCC 59.504 50.000 0.00 0.00 0.00 4.46
3376 6403 0.815734 TCTTCTTCTTAGCCGACCCG 59.184 55.000 0.00 0.00 0.00 5.28
3391 6418 3.587923 CGACCCGGAAATACACTAAACA 58.412 45.455 0.73 0.00 0.00 2.83
3392 6419 3.995705 CGACCCGGAAATACACTAAACAA 59.004 43.478 0.73 0.00 0.00 2.83
3393 6420 4.092383 CGACCCGGAAATACACTAAACAAG 59.908 45.833 0.73 0.00 0.00 3.16
3423 6464 2.309136 ATTTTGGGGTCACCTCAAGG 57.691 50.000 9.72 0.00 41.11 3.61
3437 6478 1.821136 CTCAAGGGTGGCCTGATTTTC 59.179 52.381 3.32 0.00 0.00 2.29
3438 6479 1.146774 TCAAGGGTGGCCTGATTTTCA 59.853 47.619 3.32 0.00 0.00 2.69
3439 6480 1.969923 CAAGGGTGGCCTGATTTTCAA 59.030 47.619 3.32 0.00 0.00 2.69
3440 6481 1.632589 AGGGTGGCCTGATTTTCAAC 58.367 50.000 3.32 0.00 0.00 3.18
3441 6482 1.133199 AGGGTGGCCTGATTTTCAACA 60.133 47.619 3.32 0.00 0.00 3.33
3442 6483 1.901833 GGGTGGCCTGATTTTCAACAT 59.098 47.619 3.32 0.00 0.00 2.71
3443 6484 2.094026 GGGTGGCCTGATTTTCAACATC 60.094 50.000 3.32 0.00 0.00 3.06
3444 6485 2.562298 GGTGGCCTGATTTTCAACATCA 59.438 45.455 3.32 0.00 0.00 3.07
3458 6499 2.805671 CAACATCAAGGTCGTGCAACTA 59.194 45.455 0.00 0.00 31.75 2.24
3459 6500 3.334583 ACATCAAGGTCGTGCAACTAT 57.665 42.857 0.00 0.00 31.75 2.12
3465 6506 4.693566 TCAAGGTCGTGCAACTATAAAAGG 59.306 41.667 0.00 0.00 31.75 3.11
3470 6511 3.078837 CGTGCAACTATAAAAGGGGTGT 58.921 45.455 0.00 0.00 31.75 4.16
3475 6516 4.947388 GCAACTATAAAAGGGGTGTGATGA 59.053 41.667 0.00 0.00 0.00 2.92
3503 6544 2.120232 CAGACGGCTATCAATGTCGAC 58.880 52.381 9.11 9.11 36.49 4.20
3504 6545 1.067212 AGACGGCTATCAATGTCGACC 59.933 52.381 14.12 0.00 36.49 4.79
3507 6548 1.335964 CGGCTATCAATGTCGACCGAT 60.336 52.381 14.12 14.25 41.61 4.18
3508 6549 2.061773 GGCTATCAATGTCGACCGATG 58.938 52.381 14.12 9.41 0.00 3.84
3509 6550 2.061773 GCTATCAATGTCGACCGATGG 58.938 52.381 14.12 14.47 0.00 3.51
3519 6560 6.829229 ATGTCGACCGATGGATAACTATTA 57.171 37.500 14.12 0.00 0.00 0.98
3520 6561 6.829229 TGTCGACCGATGGATAACTATTAT 57.171 37.500 14.12 0.00 0.00 1.28
3558 6600 8.806177 TTATTTGCAGCAATAATATTCAGCAG 57.194 30.769 9.12 0.00 31.87 4.24
3559 6601 6.453926 TTTGCAGCAATAATATTCAGCAGA 57.546 33.333 9.12 0.00 31.87 4.26
3560 6602 5.684550 TGCAGCAATAATATTCAGCAGAG 57.315 39.130 0.00 0.00 0.00 3.35
3561 6603 5.370679 TGCAGCAATAATATTCAGCAGAGA 58.629 37.500 0.00 0.00 0.00 3.10
3562 6604 5.237996 TGCAGCAATAATATTCAGCAGAGAC 59.762 40.000 0.00 0.00 0.00 3.36
3563 6605 5.237996 GCAGCAATAATATTCAGCAGAGACA 59.762 40.000 0.00 0.00 0.00 3.41
3564 6606 6.072618 GCAGCAATAATATTCAGCAGAGACAT 60.073 38.462 0.00 0.00 0.00 3.06
3565 6607 7.298854 CAGCAATAATATTCAGCAGAGACATG 58.701 38.462 0.00 0.00 0.00 3.21
3566 6608 6.996879 AGCAATAATATTCAGCAGAGACATGT 59.003 34.615 0.00 0.00 0.00 3.21
3567 6609 7.501559 AGCAATAATATTCAGCAGAGACATGTT 59.498 33.333 0.00 0.00 0.00 2.71
3568 6610 7.802251 GCAATAATATTCAGCAGAGACATGTTC 59.198 37.037 0.00 0.00 0.00 3.18
3569 6611 7.976135 ATAATATTCAGCAGAGACATGTTCC 57.024 36.000 0.00 0.00 0.00 3.62
3570 6612 3.708403 ATTCAGCAGAGACATGTTCCA 57.292 42.857 0.00 0.00 0.00 3.53
3571 6613 3.490439 TTCAGCAGAGACATGTTCCAA 57.510 42.857 0.00 0.00 0.00 3.53
3572 6614 3.049708 TCAGCAGAGACATGTTCCAAG 57.950 47.619 0.00 0.00 0.00 3.61
3573 6615 1.467734 CAGCAGAGACATGTTCCAAGC 59.532 52.381 0.00 1.37 0.00 4.01
3574 6616 0.807496 GCAGAGACATGTTCCAAGCC 59.193 55.000 0.00 0.00 0.00 4.35
3575 6617 1.883638 GCAGAGACATGTTCCAAGCCA 60.884 52.381 0.00 0.00 0.00 4.75
3576 6618 2.719739 CAGAGACATGTTCCAAGCCAT 58.280 47.619 0.00 0.00 0.00 4.40
3577 6619 2.422479 CAGAGACATGTTCCAAGCCATG 59.578 50.000 0.00 0.00 43.21 3.66
3589 6631 2.877786 CCAAGCCATGGTTTTTGTTTCC 59.122 45.455 11.67 0.00 44.85 3.13
3590 6632 3.433456 CCAAGCCATGGTTTTTGTTTCCT 60.433 43.478 11.67 0.00 44.85 3.36
3591 6633 4.198530 CAAGCCATGGTTTTTGTTTCCTT 58.801 39.130 11.67 0.00 0.00 3.36
3592 6634 5.363939 CAAGCCATGGTTTTTGTTTCCTTA 58.636 37.500 11.67 0.00 0.00 2.69
3593 6635 5.213891 AGCCATGGTTTTTGTTTCCTTAG 57.786 39.130 14.67 0.00 0.00 2.18
3594 6636 4.653801 AGCCATGGTTTTTGTTTCCTTAGT 59.346 37.500 14.67 0.00 0.00 2.24
3595 6637 4.749598 GCCATGGTTTTTGTTTCCTTAGTG 59.250 41.667 14.67 0.00 0.00 2.74
3596 6638 5.296748 CCATGGTTTTTGTTTCCTTAGTGG 58.703 41.667 2.57 0.00 37.10 4.00
3597 6639 4.394439 TGGTTTTTGTTTCCTTAGTGGC 57.606 40.909 0.00 0.00 35.26 5.01
3598 6640 3.769844 TGGTTTTTGTTTCCTTAGTGGCA 59.230 39.130 0.00 0.00 35.26 4.92
3599 6641 4.223032 TGGTTTTTGTTTCCTTAGTGGCAA 59.777 37.500 0.00 0.00 35.26 4.52
3600 6642 5.104735 TGGTTTTTGTTTCCTTAGTGGCAAT 60.105 36.000 0.00 0.00 35.26 3.56
3601 6643 5.465390 GGTTTTTGTTTCCTTAGTGGCAATC 59.535 40.000 0.00 0.00 35.26 2.67
3602 6644 4.864704 TTTGTTTCCTTAGTGGCAATCC 57.135 40.909 0.00 0.00 35.26 3.01
3603 6645 3.517296 TGTTTCCTTAGTGGCAATCCA 57.483 42.857 0.00 0.00 40.85 3.41
3604 6646 3.838565 TGTTTCCTTAGTGGCAATCCAA 58.161 40.909 0.00 0.00 45.53 3.53
3605 6647 4.219115 TGTTTCCTTAGTGGCAATCCAAA 58.781 39.130 0.00 0.00 45.53 3.28
3606 6648 4.651503 TGTTTCCTTAGTGGCAATCCAAAA 59.348 37.500 0.00 0.00 45.53 2.44
3607 6649 5.221422 TGTTTCCTTAGTGGCAATCCAAAAG 60.221 40.000 0.00 0.00 45.53 2.27
3608 6650 4.380843 TCCTTAGTGGCAATCCAAAAGA 57.619 40.909 0.00 0.00 45.53 2.52
3609 6651 4.079253 TCCTTAGTGGCAATCCAAAAGAC 58.921 43.478 0.00 0.00 45.53 3.01
3610 6652 3.119849 CCTTAGTGGCAATCCAAAAGACG 60.120 47.826 0.00 0.00 45.53 4.18
3611 6653 0.598065 AGTGGCAATCCAAAAGACGC 59.402 50.000 0.00 0.00 45.53 5.19
3612 6654 0.729140 GTGGCAATCCAAAAGACGCG 60.729 55.000 3.53 3.53 45.53 6.01
3613 6655 1.154035 GGCAATCCAAAAGACGCGG 60.154 57.895 12.47 0.00 0.00 6.46
3614 6656 1.582610 GGCAATCCAAAAGACGCGGA 61.583 55.000 12.47 0.00 0.00 5.54
3615 6657 0.179189 GCAATCCAAAAGACGCGGAG 60.179 55.000 12.47 0.00 30.84 4.63
3640 6682 2.733945 TTTTTCTTGCAGCCCGGC 59.266 55.556 0.00 0.00 0.00 6.13
3641 6683 3.206211 TTTTTCTTGCAGCCCGGCG 62.206 57.895 3.05 0.00 36.28 6.46
3642 6684 4.634703 TTTCTTGCAGCCCGGCGA 62.635 61.111 9.30 0.00 36.28 5.54
3643 6685 4.634703 TTCTTGCAGCCCGGCGAA 62.635 61.111 9.30 0.00 36.28 4.70
3644 6686 4.634703 TCTTGCAGCCCGGCGAAA 62.635 61.111 9.30 0.00 36.28 3.46
3645 6687 4.107051 CTTGCAGCCCGGCGAAAG 62.107 66.667 9.30 5.72 36.28 2.62
3646 6688 4.947147 TTGCAGCCCGGCGAAAGT 62.947 61.111 9.30 0.00 36.28 2.66
3647 6689 4.947147 TGCAGCCCGGCGAAAGTT 62.947 61.111 9.30 0.00 36.28 2.66
3648 6690 2.744709 GCAGCCCGGCGAAAGTTA 60.745 61.111 9.30 0.00 0.00 2.24
3649 6691 2.112815 GCAGCCCGGCGAAAGTTAT 61.113 57.895 9.30 0.00 0.00 1.89
3650 6692 1.654023 GCAGCCCGGCGAAAGTTATT 61.654 55.000 9.30 0.00 0.00 1.40
3651 6693 0.808755 CAGCCCGGCGAAAGTTATTT 59.191 50.000 9.30 0.00 0.00 1.40
3652 6694 0.808755 AGCCCGGCGAAAGTTATTTG 59.191 50.000 9.30 0.00 0.00 2.32
3653 6695 0.179148 GCCCGGCGAAAGTTATTTGG 60.179 55.000 9.30 0.00 0.00 3.28
3654 6696 1.455248 CCCGGCGAAAGTTATTTGGA 58.545 50.000 9.30 0.00 0.00 3.53
3655 6697 1.400494 CCCGGCGAAAGTTATTTGGAG 59.600 52.381 9.30 0.00 0.00 3.86
3656 6698 1.202143 CCGGCGAAAGTTATTTGGAGC 60.202 52.381 9.30 0.00 0.00 4.70
3657 6699 1.737793 CGGCGAAAGTTATTTGGAGCT 59.262 47.619 0.00 0.00 0.00 4.09
3658 6700 2.476185 CGGCGAAAGTTATTTGGAGCTG 60.476 50.000 0.00 0.00 0.00 4.24
3659 6701 2.519963 GCGAAAGTTATTTGGAGCTGC 58.480 47.619 0.00 0.00 0.00 5.25
3660 6702 2.095263 GCGAAAGTTATTTGGAGCTGCA 60.095 45.455 2.72 2.72 0.00 4.41
3661 6703 3.428045 GCGAAAGTTATTTGGAGCTGCAT 60.428 43.478 9.39 0.00 0.00 3.96
3662 6704 4.737054 CGAAAGTTATTTGGAGCTGCATT 58.263 39.130 9.39 2.30 0.00 3.56
3663 6705 4.795278 CGAAAGTTATTTGGAGCTGCATTC 59.205 41.667 9.39 7.07 0.00 2.67
3664 6706 4.361451 AAGTTATTTGGAGCTGCATTCG 57.639 40.909 9.39 0.00 0.00 3.34
3665 6707 2.098117 AGTTATTTGGAGCTGCATTCGC 59.902 45.455 9.39 0.00 39.24 4.70
3677 6719 2.619013 GCATTCGCAATATGGTAGGC 57.381 50.000 0.00 0.00 38.36 3.93
3678 6720 1.879380 GCATTCGCAATATGGTAGGCA 59.121 47.619 0.00 0.00 38.36 4.75
3679 6721 2.350772 GCATTCGCAATATGGTAGGCAC 60.351 50.000 0.00 0.00 38.36 5.01
3680 6722 2.700722 TTCGCAATATGGTAGGCACA 57.299 45.000 0.00 0.00 0.00 4.57
3681 6723 2.238942 TCGCAATATGGTAGGCACAG 57.761 50.000 0.00 0.00 0.00 3.66
3682 6724 1.760029 TCGCAATATGGTAGGCACAGA 59.240 47.619 0.00 0.00 0.00 3.41
3683 6725 1.867233 CGCAATATGGTAGGCACAGAC 59.133 52.381 0.00 0.00 0.00 3.51
3684 6726 2.483714 CGCAATATGGTAGGCACAGACT 60.484 50.000 0.00 0.00 0.00 3.24
3685 6727 3.243737 CGCAATATGGTAGGCACAGACTA 60.244 47.826 0.00 0.00 0.00 2.59
3686 6728 4.310769 GCAATATGGTAGGCACAGACTAG 58.689 47.826 0.00 0.00 0.00 2.57
3687 6729 4.800914 GCAATATGGTAGGCACAGACTAGG 60.801 50.000 0.00 0.00 0.00 3.02
3688 6730 1.794714 ATGGTAGGCACAGACTAGGG 58.205 55.000 0.00 0.00 0.00 3.53
3689 6731 0.412244 TGGTAGGCACAGACTAGGGT 59.588 55.000 0.00 0.00 0.00 4.34
3690 6732 1.642238 TGGTAGGCACAGACTAGGGTA 59.358 52.381 0.00 0.00 0.00 3.69
3691 6733 2.030371 GGTAGGCACAGACTAGGGTAC 58.970 57.143 0.00 0.00 0.00 3.34
3692 6734 2.357986 GGTAGGCACAGACTAGGGTACT 60.358 54.545 0.00 0.00 0.00 2.73
3693 6735 3.117738 GGTAGGCACAGACTAGGGTACTA 60.118 52.174 0.00 0.00 0.00 1.82
3694 6736 3.975479 AGGCACAGACTAGGGTACTAT 57.025 47.619 0.00 0.00 0.00 2.12
3695 6737 5.222007 GGTAGGCACAGACTAGGGTACTATA 60.222 48.000 0.00 0.00 0.00 1.31
3696 6738 5.602291 AGGCACAGACTAGGGTACTATAT 57.398 43.478 0.00 0.00 0.00 0.86
3697 6739 5.572252 AGGCACAGACTAGGGTACTATATC 58.428 45.833 0.00 0.00 0.00 1.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 9.773328 CATATCTATGTTTTCTTTTGCGAGAAA 57.227 29.630 5.84 5.84 42.28 2.52
31 32 8.946085 ACATATCTATGTTTTCTTTTGCGAGAA 58.054 29.630 0.00 0.00 43.99 2.87
32 33 8.492673 ACATATCTATGTTTTCTTTTGCGAGA 57.507 30.769 0.00 0.00 43.99 4.04
83 84 6.039941 TGGTGTTCAAAAATTGGTAGGTACTG 59.960 38.462 0.00 0.00 41.52 2.74
195 210 2.118403 AACCCCTTCAACTCCTCTCA 57.882 50.000 0.00 0.00 0.00 3.27
198 213 4.679905 CGTACATAACCCCTTCAACTCCTC 60.680 50.000 0.00 0.00 0.00 3.71
300 322 6.719370 AGTTTGGTTATTCAGGCATGTAGAAA 59.281 34.615 0.00 0.00 0.00 2.52
344 385 5.692204 CGTGTCACTTTTGAGTAATGTCTCT 59.308 40.000 0.65 0.00 35.68 3.10
357 398 6.815142 GTCAATATAGGGTACGTGTCACTTTT 59.185 38.462 0.00 0.00 0.00 2.27
453 1480 2.576615 TGTCATGTCGATCGATCCTCT 58.423 47.619 22.50 1.64 0.00 3.69
454 1481 3.240884 CATGTCATGTCGATCGATCCTC 58.759 50.000 22.50 8.85 0.00 3.71
455 1482 2.625314 ACATGTCATGTCGATCGATCCT 59.375 45.455 22.50 6.15 39.92 3.24
456 1483 3.018598 ACATGTCATGTCGATCGATCC 57.981 47.619 22.50 10.03 39.92 3.36
512 1561 1.952296 ACTTCTTGAGGCTGCAAGTTG 59.048 47.619 19.26 16.11 44.30 3.16
523 2504 3.849911 TGCGTTAGGATCACTTCTTGAG 58.150 45.455 0.00 0.00 37.77 3.02
604 2606 1.072505 CCACTACCACACCACCCAC 59.927 63.158 0.00 0.00 0.00 4.61
607 2609 0.834687 TCCTCCACTACCACACCACC 60.835 60.000 0.00 0.00 0.00 4.61
611 2613 0.613260 TGCATCCTCCACTACCACAC 59.387 55.000 0.00 0.00 0.00 3.82
612 2614 1.357137 TTGCATCCTCCACTACCACA 58.643 50.000 0.00 0.00 0.00 4.17
685 2688 2.033424 GCTGGTTGACTCTTTTGTGTCC 59.967 50.000 0.00 0.00 40.94 4.02
766 2772 4.335525 GTCGTGTGCGTCGTGTGC 62.336 66.667 0.00 0.00 39.49 4.57
776 2782 1.010125 CTTTTGCCCGTGTCGTGTG 60.010 57.895 0.00 0.00 0.00 3.82
777 2783 0.534203 ATCTTTTGCCCGTGTCGTGT 60.534 50.000 0.00 0.00 0.00 4.49
778 2784 0.591170 AATCTTTTGCCCGTGTCGTG 59.409 50.000 0.00 0.00 0.00 4.35
779 2785 1.265905 GAAATCTTTTGCCCGTGTCGT 59.734 47.619 0.00 0.00 0.00 4.34
780 2786 1.265635 TGAAATCTTTTGCCCGTGTCG 59.734 47.619 0.00 0.00 0.00 4.35
781 2787 2.661594 GTGAAATCTTTTGCCCGTGTC 58.338 47.619 0.00 0.00 0.00 3.67
839 3523 4.067896 TCATCTTTTCAGCTCCAGTGAAC 58.932 43.478 0.00 0.00 33.63 3.18
899 3635 0.314302 GAGTACACACACACGGAGCT 59.686 55.000 0.00 0.00 0.00 4.09
900 3636 0.314302 AGAGTACACACACACGGAGC 59.686 55.000 0.00 0.00 0.00 4.70
927 3669 1.045350 TCCTGCTAGCTACAGCCCAG 61.045 60.000 17.23 1.67 43.38 4.45
928 3670 1.001631 TCCTGCTAGCTACAGCCCA 59.998 57.895 17.23 0.00 43.38 5.36
929 3671 1.745264 CTCCTGCTAGCTACAGCCC 59.255 63.158 17.23 0.00 43.38 5.19
934 3676 1.657556 CCTCGCTCCTGCTAGCTAC 59.342 63.158 17.23 0.00 40.49 3.58
1002 3746 2.807108 GCAGAGTATAAAAGGGGCCTCG 60.807 54.545 0.84 0.00 0.00 4.63
1064 3847 3.207669 GCGGCAATGGCAGAGGAG 61.208 66.667 7.75 0.00 43.71 3.69
1142 3925 1.604278 GCAAACCGAAGCTCAGTTTCT 59.396 47.619 0.00 0.00 31.54 2.52
1144 3927 0.307760 CGCAAACCGAAGCTCAGTTT 59.692 50.000 3.57 3.57 40.02 2.66
1145 3928 0.814010 ACGCAAACCGAAGCTCAGTT 60.814 50.000 0.00 0.00 41.02 3.16
1155 3938 1.606350 GACTGAGACGACGCAAACCG 61.606 60.000 0.00 0.00 44.21 4.44
1199 3992 2.202623 CTCTTCTTCGTCCCGCCG 60.203 66.667 0.00 0.00 0.00 6.46
1421 4216 4.585955 TGTTATAGTGGCACTAGCTAGC 57.414 45.455 29.14 20.03 41.70 3.42
1422 4217 7.928706 AGAAAATGTTATAGTGGCACTAGCTAG 59.071 37.037 29.14 19.44 41.70 3.42
1423 4218 7.792032 AGAAAATGTTATAGTGGCACTAGCTA 58.208 34.615 29.14 16.83 41.70 3.32
1424 4219 6.653989 AGAAAATGTTATAGTGGCACTAGCT 58.346 36.000 29.14 17.80 41.70 3.32
1466 4261 8.600625 CAATCAATTGCATCACATAAAAGGAAG 58.399 33.333 0.00 0.00 0.00 3.46
1493 4288 3.435105 TCTCCACACAACAAACATTGC 57.565 42.857 0.00 0.00 32.47 3.56
1502 4300 4.628074 TGCTAACTAGTTCTCCACACAAC 58.372 43.478 12.39 0.00 0.00 3.32
1537 4352 7.906199 AAACCCGATTAATCCCATCAAATTA 57.094 32.000 9.87 0.00 0.00 1.40
1573 4388 3.216800 TCAAGGCCTAATAATGCAGCAG 58.783 45.455 5.16 0.00 0.00 4.24
1748 4563 3.547249 GACCTCGTTGTCGGTGCGA 62.547 63.158 0.00 0.00 37.69 5.10
2036 5042 3.374402 CCCGACAGCGAGGACAGT 61.374 66.667 0.00 0.00 40.82 3.55
2120 5126 2.697761 CGACACCGACGGGATGACT 61.698 63.158 20.00 0.00 38.22 3.41
2123 5129 2.102357 CTCGACACCGACGGGATG 59.898 66.667 20.00 10.99 40.30 3.51
2153 5159 3.395702 ACGCCGGCCATGGAGTTA 61.396 61.111 23.46 0.00 39.12 2.24
2193 5199 2.879462 CTCGTCCGTAGCGTTGCC 60.879 66.667 0.00 0.00 0.00 4.52
2194 5200 3.542742 GCTCGTCCGTAGCGTTGC 61.543 66.667 0.00 0.00 0.00 4.17
2201 5207 2.566529 CAGCACAGCTCGTCCGTA 59.433 61.111 0.00 0.00 36.40 4.02
2223 5235 2.820787 TCGGGTTGTTCTTGTTGTTGTT 59.179 40.909 0.00 0.00 0.00 2.83
2224 5236 2.422127 CTCGGGTTGTTCTTGTTGTTGT 59.578 45.455 0.00 0.00 0.00 3.32
2225 5237 2.794631 GCTCGGGTTGTTCTTGTTGTTG 60.795 50.000 0.00 0.00 0.00 3.33
2226 5238 1.404035 GCTCGGGTTGTTCTTGTTGTT 59.596 47.619 0.00 0.00 0.00 2.83
2227 5239 1.021968 GCTCGGGTTGTTCTTGTTGT 58.978 50.000 0.00 0.00 0.00 3.32
2228 5240 1.021202 TGCTCGGGTTGTTCTTGTTG 58.979 50.000 0.00 0.00 0.00 3.33
2229 5241 1.404035 GTTGCTCGGGTTGTTCTTGTT 59.596 47.619 0.00 0.00 0.00 2.83
2230 5242 1.021968 GTTGCTCGGGTTGTTCTTGT 58.978 50.000 0.00 0.00 0.00 3.16
2231 5243 1.002468 CTGTTGCTCGGGTTGTTCTTG 60.002 52.381 0.00 0.00 0.00 3.02
2232 5244 1.308998 CTGTTGCTCGGGTTGTTCTT 58.691 50.000 0.00 0.00 0.00 2.52
2233 5245 1.166531 GCTGTTGCTCGGGTTGTTCT 61.167 55.000 0.00 0.00 36.03 3.01
2234 5246 1.282875 GCTGTTGCTCGGGTTGTTC 59.717 57.895 0.00 0.00 36.03 3.18
2276 5291 3.351416 TTGCTGCTGCTCTGCGTG 61.351 61.111 17.00 0.00 41.87 5.34
2549 5564 0.953960 GCTGTCGGTTGGGTACTTGG 60.954 60.000 0.00 0.00 0.00 3.61
2552 5567 2.590114 GGGCTGTCGGTTGGGTACT 61.590 63.158 0.00 0.00 0.00 2.73
2553 5568 2.046604 GGGCTGTCGGTTGGGTAC 60.047 66.667 0.00 0.00 0.00 3.34
2554 5569 3.697747 CGGGCTGTCGGTTGGGTA 61.698 66.667 0.00 0.00 0.00 3.69
2668 5686 9.817809 CTCACCAAACATTTCTTAGTATAGCTA 57.182 33.333 0.00 0.00 0.00 3.32
2669 5687 7.770897 CCTCACCAAACATTTCTTAGTATAGCT 59.229 37.037 0.00 0.00 0.00 3.32
2670 5688 7.553044 ACCTCACCAAACATTTCTTAGTATAGC 59.447 37.037 0.00 0.00 0.00 2.97
2671 5689 9.449719 AACCTCACCAAACATTTCTTAGTATAG 57.550 33.333 0.00 0.00 0.00 1.31
2672 5690 9.802039 AAACCTCACCAAACATTTCTTAGTATA 57.198 29.630 0.00 0.00 0.00 1.47
2673 5691 8.706322 AAACCTCACCAAACATTTCTTAGTAT 57.294 30.769 0.00 0.00 0.00 2.12
2712 5730 5.246429 ACAAGAGAGAACGTAAGGGAGAAAT 59.754 40.000 0.00 0.00 46.39 2.17
2749 5767 7.879070 TCACCAAATCAAGATGAAAGAAAGAG 58.121 34.615 0.00 0.00 0.00 2.85
2750 5768 7.822161 TCACCAAATCAAGATGAAAGAAAGA 57.178 32.000 0.00 0.00 0.00 2.52
2751 5769 8.922676 CAATCACCAAATCAAGATGAAAGAAAG 58.077 33.333 0.00 0.00 0.00 2.62
2752 5770 8.640651 TCAATCACCAAATCAAGATGAAAGAAA 58.359 29.630 0.00 0.00 0.00 2.52
2876 5894 9.915629 ACGCAAAAATCAAACACCTTTATATAA 57.084 25.926 0.00 0.00 0.00 0.98
2920 5938 1.377987 ACACCACACCACACCACAC 60.378 57.895 0.00 0.00 0.00 3.82
2921 5939 1.377856 CACACCACACCACACCACA 60.378 57.895 0.00 0.00 0.00 4.17
2922 5940 2.118404 CCACACCACACCACACCAC 61.118 63.158 0.00 0.00 0.00 4.16
2923 5941 2.273776 CCACACCACACCACACCA 59.726 61.111 0.00 0.00 0.00 4.17
2924 5942 2.118404 CACCACACCACACCACACC 61.118 63.158 0.00 0.00 0.00 4.16
2969 5987 1.480219 GATAAAGCCAGACGTCCGCG 61.480 60.000 13.01 0.00 44.93 6.46
2977 5995 1.564348 GGACCCCTTGATAAAGCCAGA 59.436 52.381 0.00 0.00 0.00 3.86
3116 6138 5.181433 CCTTACAGCTCAATCATCATCATGG 59.819 44.000 0.00 0.00 0.00 3.66
3141 6163 5.755861 AGTATAAAGTACGTACGTCCTCTCC 59.244 44.000 26.53 7.41 0.00 3.71
3148 6170 5.295431 TGCACAGTATAAAGTACGTACGT 57.705 39.130 25.98 25.98 0.00 3.57
3149 6171 5.275602 GCTTGCACAGTATAAAGTACGTACG 60.276 44.000 19.49 15.01 0.00 3.67
3150 6172 5.803967 AGCTTGCACAGTATAAAGTACGTAC 59.196 40.000 18.10 18.10 0.00 3.67
3151 6173 5.957798 AGCTTGCACAGTATAAAGTACGTA 58.042 37.500 0.00 0.00 0.00 3.57
3226 6248 2.073056 TCATTTCATGGAACCGTGACG 58.927 47.619 14.35 0.00 41.12 4.35
3255 6277 3.952535 AGCACAGTGATGTTTTTCGTTC 58.047 40.909 4.15 0.00 0.00 3.95
3283 6305 5.105554 TGAAAGCTGCACCTTCTAACAAAAA 60.106 36.000 1.02 0.00 0.00 1.94
3344 6366 7.442666 GGCTAAGAAGAAGAAGAAGAGAAAACA 59.557 37.037 0.00 0.00 0.00 2.83
3350 6372 5.099575 GTCGGCTAAGAAGAAGAAGAAGAG 58.900 45.833 0.00 0.00 0.00 2.85
3360 6387 3.612251 CCGGGTCGGCTAAGAAGA 58.388 61.111 0.00 0.00 41.17 2.87
3376 6403 9.989869 GCTATTTCTCTTGTTTAGTGTATTTCC 57.010 33.333 0.00 0.00 0.00 3.13
3386 6413 8.966868 CCCCAAAATAGCTATTTCTCTTGTTTA 58.033 33.333 27.56 0.00 35.00 2.01
3387 6414 7.454694 ACCCCAAAATAGCTATTTCTCTTGTTT 59.545 33.333 27.56 10.35 35.00 2.83
3388 6415 6.954102 ACCCCAAAATAGCTATTTCTCTTGTT 59.046 34.615 27.56 11.01 35.00 2.83
3389 6416 6.494059 ACCCCAAAATAGCTATTTCTCTTGT 58.506 36.000 27.56 18.70 35.00 3.16
3391 6418 6.603599 GTGACCCCAAAATAGCTATTTCTCTT 59.396 38.462 27.56 12.66 35.00 2.85
3392 6419 6.122964 GTGACCCCAAAATAGCTATTTCTCT 58.877 40.000 27.56 12.99 35.00 3.10
3393 6420 5.299531 GGTGACCCCAAAATAGCTATTTCTC 59.700 44.000 27.56 16.16 35.00 2.87
3401 6442 2.507407 TGAGGTGACCCCAAAATAGC 57.493 50.000 0.00 0.00 34.66 2.97
3423 6464 2.562298 TGATGTTGAAAATCAGGCCACC 59.438 45.455 5.01 0.00 30.61 4.61
3426 6467 3.259123 ACCTTGATGTTGAAAATCAGGCC 59.741 43.478 11.40 0.00 35.54 5.19
3437 6478 1.603802 AGTTGCACGACCTTGATGTTG 59.396 47.619 0.00 0.00 0.00 3.33
3438 6479 1.967319 AGTTGCACGACCTTGATGTT 58.033 45.000 0.00 0.00 0.00 2.71
3439 6480 2.831685 TAGTTGCACGACCTTGATGT 57.168 45.000 0.00 0.00 0.00 3.06
3440 6481 5.794687 TTTATAGTTGCACGACCTTGATG 57.205 39.130 0.00 0.00 0.00 3.07
3441 6482 5.354234 CCTTTTATAGTTGCACGACCTTGAT 59.646 40.000 0.00 0.00 0.00 2.57
3442 6483 4.693566 CCTTTTATAGTTGCACGACCTTGA 59.306 41.667 0.00 0.00 0.00 3.02
3443 6484 4.142687 CCCTTTTATAGTTGCACGACCTTG 60.143 45.833 0.00 0.00 0.00 3.61
3444 6485 4.007659 CCCTTTTATAGTTGCACGACCTT 58.992 43.478 0.00 0.00 0.00 3.50
3458 6499 6.078456 TGAAGATCATCACACCCCTTTTAT 57.922 37.500 0.00 0.00 0.00 1.40
3459 6500 5.512942 TGAAGATCATCACACCCCTTTTA 57.487 39.130 0.00 0.00 0.00 1.52
3475 6516 4.944619 TTGATAGCCGTCTGATGAAGAT 57.055 40.909 0.00 0.00 37.23 2.40
3484 6525 1.067212 GGTCGACATTGATAGCCGTCT 59.933 52.381 18.91 0.00 0.00 4.18
3519 6560 8.388484 TGCTGCAAATAAACAAAAACCATAAT 57.612 26.923 0.00 0.00 0.00 1.28
3520 6561 7.792374 TGCTGCAAATAAACAAAAACCATAA 57.208 28.000 0.00 0.00 0.00 1.90
3535 6577 7.013942 TCTCTGCTGAATATTATTGCTGCAAAT 59.986 33.333 20.06 11.70 35.35 2.32
3540 6582 6.856135 TGTCTCTGCTGAATATTATTGCTG 57.144 37.500 0.00 7.46 0.00 4.41
3541 6583 6.996879 ACATGTCTCTGCTGAATATTATTGCT 59.003 34.615 0.00 0.00 0.00 3.91
3543 6585 8.288208 GGAACATGTCTCTGCTGAATATTATTG 58.712 37.037 0.00 0.00 0.00 1.90
3555 6597 0.807496 GGCTTGGAACATGTCTCTGC 59.193 55.000 0.00 0.46 39.30 4.26
3569 6611 3.807553 AGGAAACAAAAACCATGGCTTG 58.192 40.909 13.04 15.21 0.00 4.01
3570 6612 4.502105 AAGGAAACAAAAACCATGGCTT 57.498 36.364 13.04 2.12 0.00 4.35
3571 6613 4.653801 ACTAAGGAAACAAAAACCATGGCT 59.346 37.500 13.04 0.00 0.00 4.75
3572 6614 4.749598 CACTAAGGAAACAAAAACCATGGC 59.250 41.667 13.04 0.00 0.00 4.40
3573 6615 5.296748 CCACTAAGGAAACAAAAACCATGG 58.703 41.667 11.19 11.19 41.22 3.66
3574 6616 4.749598 GCCACTAAGGAAACAAAAACCATG 59.250 41.667 0.00 0.00 41.22 3.66
3575 6617 4.407296 TGCCACTAAGGAAACAAAAACCAT 59.593 37.500 0.00 0.00 41.22 3.55
3576 6618 3.769844 TGCCACTAAGGAAACAAAAACCA 59.230 39.130 0.00 0.00 41.22 3.67
3577 6619 4.394439 TGCCACTAAGGAAACAAAAACC 57.606 40.909 0.00 0.00 41.22 3.27
3578 6620 5.465390 GGATTGCCACTAAGGAAACAAAAAC 59.535 40.000 0.00 0.00 37.91 2.43
3579 6621 5.129485 TGGATTGCCACTAAGGAAACAAAAA 59.871 36.000 0.00 0.00 37.91 1.94
3580 6622 4.651503 TGGATTGCCACTAAGGAAACAAAA 59.348 37.500 0.00 0.00 37.91 2.44
3581 6623 4.219115 TGGATTGCCACTAAGGAAACAAA 58.781 39.130 0.00 0.00 37.91 2.83
3582 6624 3.838565 TGGATTGCCACTAAGGAAACAA 58.161 40.909 0.00 0.00 37.91 2.83
3583 6625 3.517296 TGGATTGCCACTAAGGAAACA 57.483 42.857 0.00 0.00 37.91 2.83
3584 6626 4.864704 TTTGGATTGCCACTAAGGAAAC 57.135 40.909 0.00 0.00 45.94 2.78
3585 6627 5.010617 GTCTTTTGGATTGCCACTAAGGAAA 59.989 40.000 0.00 0.00 45.94 3.13
3586 6628 4.522789 GTCTTTTGGATTGCCACTAAGGAA 59.477 41.667 0.00 0.00 45.94 3.36
3587 6629 4.079253 GTCTTTTGGATTGCCACTAAGGA 58.921 43.478 0.00 0.00 45.94 3.36
3588 6630 3.119849 CGTCTTTTGGATTGCCACTAAGG 60.120 47.826 0.00 0.00 45.94 2.69
3589 6631 3.670627 GCGTCTTTTGGATTGCCACTAAG 60.671 47.826 0.00 0.00 45.94 2.18
3590 6632 2.227865 GCGTCTTTTGGATTGCCACTAA 59.772 45.455 0.00 0.00 45.94 2.24
3591 6633 1.810151 GCGTCTTTTGGATTGCCACTA 59.190 47.619 0.00 0.00 45.94 2.74
3592 6634 0.598065 GCGTCTTTTGGATTGCCACT 59.402 50.000 0.00 0.00 45.94 4.00
3593 6635 0.729140 CGCGTCTTTTGGATTGCCAC 60.729 55.000 0.00 0.00 45.94 5.01
3594 6636 1.578926 CGCGTCTTTTGGATTGCCA 59.421 52.632 0.00 0.00 44.17 4.92
3595 6637 1.154035 CCGCGTCTTTTGGATTGCC 60.154 57.895 4.92 0.00 0.00 4.52
3596 6638 0.179189 CTCCGCGTCTTTTGGATTGC 60.179 55.000 4.92 0.00 0.00 3.56
3597 6639 0.179189 GCTCCGCGTCTTTTGGATTG 60.179 55.000 4.92 0.00 0.00 2.67
3598 6640 2.171635 GCTCCGCGTCTTTTGGATT 58.828 52.632 4.92 0.00 0.00 3.01
3599 6641 3.890674 GCTCCGCGTCTTTTGGAT 58.109 55.556 4.92 0.00 0.00 3.41
3623 6665 2.733945 GCCGGGCTGCAAGAAAAA 59.266 55.556 12.87 0.00 34.07 1.94
3624 6666 3.669344 CGCCGGGCTGCAAGAAAA 61.669 61.111 18.34 0.00 34.07 2.29
3625 6667 4.634703 TCGCCGGGCTGCAAGAAA 62.635 61.111 18.34 0.00 34.07 2.52
3626 6668 4.634703 TTCGCCGGGCTGCAAGAA 62.635 61.111 18.34 9.75 34.07 2.52
3627 6669 4.634703 TTTCGCCGGGCTGCAAGA 62.635 61.111 18.34 3.20 34.07 3.02
3628 6670 4.107051 CTTTCGCCGGGCTGCAAG 62.107 66.667 18.34 12.31 0.00 4.01
3629 6671 4.947147 ACTTTCGCCGGGCTGCAA 62.947 61.111 18.34 6.61 0.00 4.08
3630 6672 2.813226 ATAACTTTCGCCGGGCTGCA 62.813 55.000 18.34 0.00 0.00 4.41
3631 6673 1.654023 AATAACTTTCGCCGGGCTGC 61.654 55.000 18.34 0.00 0.00 5.25
3632 6674 0.808755 AAATAACTTTCGCCGGGCTG 59.191 50.000 18.34 10.86 0.00 4.85
3633 6675 0.808755 CAAATAACTTTCGCCGGGCT 59.191 50.000 18.34 0.00 0.00 5.19
3634 6676 0.179148 CCAAATAACTTTCGCCGGGC 60.179 55.000 9.54 9.54 0.00 6.13
3635 6677 1.400494 CTCCAAATAACTTTCGCCGGG 59.600 52.381 2.18 0.00 0.00 5.73
3636 6678 1.202143 GCTCCAAATAACTTTCGCCGG 60.202 52.381 0.00 0.00 0.00 6.13
3637 6679 1.737793 AGCTCCAAATAACTTTCGCCG 59.262 47.619 0.00 0.00 0.00 6.46
3638 6680 2.732282 GCAGCTCCAAATAACTTTCGCC 60.732 50.000 0.00 0.00 0.00 5.54
3639 6681 2.095263 TGCAGCTCCAAATAACTTTCGC 60.095 45.455 0.00 0.00 0.00 4.70
3640 6682 3.829886 TGCAGCTCCAAATAACTTTCG 57.170 42.857 0.00 0.00 0.00 3.46
3641 6683 4.795278 CGAATGCAGCTCCAAATAACTTTC 59.205 41.667 0.00 0.00 0.00 2.62
3642 6684 4.737054 CGAATGCAGCTCCAAATAACTTT 58.263 39.130 0.00 0.00 0.00 2.66
3643 6685 3.428045 GCGAATGCAGCTCCAAATAACTT 60.428 43.478 0.00 0.00 42.15 2.66
3644 6686 2.098117 GCGAATGCAGCTCCAAATAACT 59.902 45.455 0.00 0.00 42.15 2.24
3645 6687 2.454055 GCGAATGCAGCTCCAAATAAC 58.546 47.619 0.00 0.00 42.15 1.89
3646 6688 2.849880 GCGAATGCAGCTCCAAATAA 57.150 45.000 0.00 0.00 42.15 1.40
3658 6700 1.879380 TGCCTACCATATTGCGAATGC 59.121 47.619 0.00 0.00 43.20 3.56
3659 6701 2.877786 TGTGCCTACCATATTGCGAATG 59.122 45.455 0.00 0.00 0.00 2.67
3660 6702 3.141398 CTGTGCCTACCATATTGCGAAT 58.859 45.455 0.00 0.00 0.00 3.34
3661 6703 2.169561 TCTGTGCCTACCATATTGCGAA 59.830 45.455 0.00 0.00 0.00 4.70
3662 6704 1.760029 TCTGTGCCTACCATATTGCGA 59.240 47.619 0.00 0.00 0.00 5.10
3663 6705 1.867233 GTCTGTGCCTACCATATTGCG 59.133 52.381 0.00 0.00 0.00 4.85
3664 6706 3.199880 AGTCTGTGCCTACCATATTGC 57.800 47.619 0.00 0.00 0.00 3.56
3665 6707 4.262635 CCCTAGTCTGTGCCTACCATATTG 60.263 50.000 0.00 0.00 0.00 1.90
3666 6708 3.904339 CCCTAGTCTGTGCCTACCATATT 59.096 47.826 0.00 0.00 0.00 1.28
3667 6709 3.116707 ACCCTAGTCTGTGCCTACCATAT 60.117 47.826 0.00 0.00 0.00 1.78
3668 6710 2.246588 ACCCTAGTCTGTGCCTACCATA 59.753 50.000 0.00 0.00 0.00 2.74
3669 6711 1.008449 ACCCTAGTCTGTGCCTACCAT 59.992 52.381 0.00 0.00 0.00 3.55
3670 6712 0.412244 ACCCTAGTCTGTGCCTACCA 59.588 55.000 0.00 0.00 0.00 3.25
3671 6713 2.030371 GTACCCTAGTCTGTGCCTACC 58.970 57.143 0.00 0.00 0.00 3.18
3672 6714 3.015675 AGTACCCTAGTCTGTGCCTAC 57.984 52.381 0.00 0.00 0.00 3.18
3673 6715 6.715350 ATATAGTACCCTAGTCTGTGCCTA 57.285 41.667 0.00 0.00 0.00 3.93
3674 6716 3.975479 ATAGTACCCTAGTCTGTGCCT 57.025 47.619 0.00 0.00 0.00 4.75
3675 6717 5.900865 GATATAGTACCCTAGTCTGTGCC 57.099 47.826 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.