Multiple sequence alignment - TraesCS1B01G355700

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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 TraesCS1B01G355700 chr1B 100.000 4609 0 0 620 5228 585077267 585072659 0.000000e+00 8512.0
1 TraesCS1B01G355700 chr1B 100.000 359 0 0 1 359 585077886 585077528 0.000000e+00 664.0
2 TraesCS1B01G355700 chr1B 89.286 140 6 2 3268 3398 217556504 217556643 3.240000e-37 167.0
3 TraesCS1B01G355700 chr1A 95.998 4623 144 20 622 5228 531611988 531607391 0.000000e+00 7474.0
4 TraesCS1B01G355700 chr1A 84.706 340 31 6 1 340 531612434 531612116 2.350000e-83 320.0
5 TraesCS1B01G355700 chr1A 89.583 48 5 0 3812 3859 485031909 485031862 1.570000e-05 62.1
6 TraesCS1B01G355700 chr1D 95.656 4604 140 24 650 5228 433217205 433212637 0.000000e+00 7339.0
7 TraesCS1B01G355700 chr1D 83.824 340 32 7 1 340 433217653 433217337 8.510000e-78 302.0
8 TraesCS1B01G355700 chr2D 86.806 720 86 3 2425 3141 442448970 442448257 0.000000e+00 795.0
9 TraesCS1B01G355700 chr2D 83.060 366 49 5 2776 3141 522888330 522887978 2.350000e-83 320.0
10 TraesCS1B01G355700 chr2D 84.118 340 42 4 2403 2742 522888660 522888333 8.450000e-83 318.0
11 TraesCS1B01G355700 chr2D 83.478 230 37 1 2325 2553 442449191 442448962 4.100000e-51 213.0
12 TraesCS1B01G355700 chr7D 86.096 748 90 8 2425 3165 453305289 453304549 0.000000e+00 793.0
13 TraesCS1B01G355700 chr7D 83.478 230 37 1 2325 2553 453305510 453305281 4.100000e-51 213.0
14 TraesCS1B01G355700 chr3A 74.738 1718 325 82 2444 4095 506229691 506228017 0.000000e+00 667.0
15 TraesCS1B01G355700 chr3A 95.349 43 2 0 3812 3854 96682781 96682739 9.390000e-08 69.4
16 TraesCS1B01G355700 chr3D 74.096 1714 346 71 2437 4095 383112023 383110353 2.680000e-172 616.0
17 TraesCS1B01G355700 chr3D 90.054 372 25 3 3005 3376 594157710 594158069 6.130000e-129 472.0
18 TraesCS1B01G355700 chr3D 75.492 559 97 28 3087 3628 382754291 382753756 2.430000e-58 237.0
19 TraesCS1B01G355700 chr3B 73.341 1718 350 81 2445 4095 498729179 498727503 2.140000e-148 536.0
20 TraesCS1B01G355700 chr3B 72.007 1654 340 85 2473 4071 498368442 498366857 4.940000e-100 375.0
21 TraesCS1B01G355700 chr4A 82.423 421 64 8 1953 2372 435629278 435628867 4.980000e-95 359.0
22 TraesCS1B01G355700 chr4A 97.778 45 1 0 3354 3398 435628870 435628826 1.560000e-10 78.7
23 TraesCS1B01G355700 chr5D 91.765 255 20 1 3129 3383 68892324 68892577 2.320000e-93 353.0
24 TraesCS1B01G355700 chr5D 90.909 110 10 0 3005 3114 68877451 68877560 1.170000e-31 148.0
25 TraesCS1B01G355700 chr5D 93.023 43 3 0 3802 3844 368333267 368333309 4.370000e-06 63.9
26 TraesCS1B01G355700 chr6A 87.986 283 25 4 2090 2372 250073992 250074265 5.050000e-85 326.0
27 TraesCS1B01G355700 chr6A 100.000 37 0 0 3354 3390 250074262 250074298 9.390000e-08 69.4
28 TraesCS1B01G355700 chr2B 94.667 75 3 1 3268 3341 181718937 181719011 1.190000e-21 115.0
29 TraesCS1B01G355700 chr7A 86.486 74 10 0 3773 3846 712180955 712181028 1.210000e-11 82.4
30 TraesCS1B01G355700 chr7B 89.091 55 5 1 1208 1262 302516522 302516469 3.380000e-07 67.6
31 TraesCS1B01G355700 chr6D 93.333 45 3 0 3812 3856 425902619 425902575 3.380000e-07 67.6
32 TraesCS1B01G355700 chr5B 93.023 43 3 0 3802 3844 436259157 436259199 4.370000e-06 63.9
33 TraesCS1B01G355700 chr5B 96.875 32 0 1 2605 2635 450610065 450610034 9.000000e-03 52.8
34 TraesCS1B01G355700 chr5A 93.023 43 3 0 3802 3844 470196293 470196335 4.370000e-06 63.9
35 TraesCS1B01G355700 chr5A 96.875 32 0 1 2605 2635 477814724 477814693 9.000000e-03 52.8


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 TraesCS1B01G355700 chr1B 585072659 585077886 5227 True 4588.0 8512 100.000 1 5228 2 chr1B.!!$R1 5227
1 TraesCS1B01G355700 chr1A 531607391 531612434 5043 True 3897.0 7474 90.352 1 5228 2 chr1A.!!$R2 5227
2 TraesCS1B01G355700 chr1D 433212637 433217653 5016 True 3820.5 7339 89.740 1 5228 2 chr1D.!!$R1 5227
3 TraesCS1B01G355700 chr2D 442448257 442449191 934 True 504.0 795 85.142 2325 3141 2 chr2D.!!$R1 816
4 TraesCS1B01G355700 chr2D 522887978 522888660 682 True 319.0 320 83.589 2403 3141 2 chr2D.!!$R2 738
5 TraesCS1B01G355700 chr7D 453304549 453305510 961 True 503.0 793 84.787 2325 3165 2 chr7D.!!$R1 840
6 TraesCS1B01G355700 chr3A 506228017 506229691 1674 True 667.0 667 74.738 2444 4095 1 chr3A.!!$R2 1651
7 TraesCS1B01G355700 chr3D 383110353 383112023 1670 True 616.0 616 74.096 2437 4095 1 chr3D.!!$R2 1658
8 TraesCS1B01G355700 chr3D 382753756 382754291 535 True 237.0 237 75.492 3087 3628 1 chr3D.!!$R1 541
9 TraesCS1B01G355700 chr3B 498727503 498729179 1676 True 536.0 536 73.341 2445 4095 1 chr3B.!!$R2 1650
10 TraesCS1B01G355700 chr3B 498366857 498368442 1585 True 375.0 375 72.007 2473 4071 1 chr3B.!!$R1 1598

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
302 303 0.912486 GCACAGGGTATGGAGGAGTT 59.088 55.000 0.00 0.00 0.00 3.01 F
344 345 1.002134 ATATGTGCATAGGCCCGGC 60.002 57.895 0.00 0.00 40.13 6.13 F
1522 1543 0.962855 CCTGACAGTCCTCGCTCTCA 60.963 60.000 0.93 0.00 0.00 3.27 F
1597 1618 1.515952 CAGACGCTCAAGCTCGAGG 60.516 63.158 15.58 0.00 39.32 4.63 F
2034 2055 1.676006 CTGGTGTTCCTGTGGTTGTTC 59.324 52.381 0.00 0.00 34.23 3.18 F
3743 4050 1.317319 CGCTAAAATTTCTTTGCGGCG 59.683 47.619 0.51 0.51 43.63 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1333 1354 1.000955 CGTGCAGTTGTAGAGGGACTT 59.999 52.381 0.00 0.0 41.55 3.01 R
1917 1938 1.125093 TCAAGGTCCCGAGCCTTTCA 61.125 55.000 3.02 0.0 43.24 2.69 R
2877 3138 1.450312 CTTGTCGGATGACCTGGCC 60.450 63.158 0.00 0.0 44.86 5.36 R
3018 3297 2.270527 GTGAGCTTCCAGGCCTCC 59.729 66.667 0.00 0.0 0.00 4.30 R
3768 4111 0.109039 TGTACGCGCACTCTGCATAA 60.109 50.000 11.36 0.0 45.36 1.90 R
5033 5392 1.901464 GGTTGCATTGGACGGTGGT 60.901 57.895 0.00 0.0 0.00 4.16 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
54 55 8.851541 TCATACATTCACATATGCACATACAT 57.148 30.769 1.58 0.00 0.00 2.29
80 81 6.778834 AAATCATCCATGTCAATTGTAGCA 57.221 33.333 5.13 4.15 0.00 3.49
81 82 6.971726 AATCATCCATGTCAATTGTAGCAT 57.028 33.333 5.13 6.26 0.00 3.79
82 83 8.467963 AAATCATCCATGTCAATTGTAGCATA 57.532 30.769 5.13 0.00 0.00 3.14
83 84 8.645814 AATCATCCATGTCAATTGTAGCATAT 57.354 30.769 5.13 0.00 0.00 1.78
84 85 9.743581 AATCATCCATGTCAATTGTAGCATATA 57.256 29.630 5.13 2.07 0.00 0.86
85 86 9.743581 ATCATCCATGTCAATTGTAGCATATAA 57.256 29.630 5.13 0.05 0.00 0.98
86 87 9.002600 TCATCCATGTCAATTGTAGCATATAAC 57.997 33.333 5.13 0.00 0.00 1.89
87 88 8.785946 CATCCATGTCAATTGTAGCATATAACA 58.214 33.333 5.13 0.00 0.00 2.41
88 89 8.153479 TCCATGTCAATTGTAGCATATAACAC 57.847 34.615 5.13 0.00 0.00 3.32
89 90 7.992608 TCCATGTCAATTGTAGCATATAACACT 59.007 33.333 5.13 0.00 0.00 3.55
90 91 9.271828 CCATGTCAATTGTAGCATATAACACTA 57.728 33.333 5.13 0.00 0.00 2.74
107 108 4.776349 ACACTAAACTCACATGTGAACCA 58.224 39.130 27.63 13.04 39.39 3.67
129 130 8.752005 ACCATAGAAATGCAACATATAACACT 57.248 30.769 0.00 0.00 0.00 3.55
203 204 3.307906 TGGCGCGGTGGTACTCTT 61.308 61.111 8.83 0.00 0.00 2.85
207 208 1.436336 CGCGGTGGTACTCTTAGGG 59.564 63.158 0.00 0.00 0.00 3.53
240 241 1.595993 CTTCGTTGAGGAGGGAGCGA 61.596 60.000 0.00 0.00 0.00 4.93
242 243 2.636412 CGTTGAGGAGGGAGCGACA 61.636 63.158 0.00 0.00 0.00 4.35
275 276 1.670949 GAGGAGCTCGGCTGATGACA 61.671 60.000 7.83 0.00 39.88 3.58
282 283 1.672030 CGGCTGATGACAAGGTGCA 60.672 57.895 0.00 0.00 0.00 4.57
302 303 0.912486 GCACAGGGTATGGAGGAGTT 59.088 55.000 0.00 0.00 0.00 3.01
307 308 1.366435 AGGGTATGGAGGAGTTGAGGT 59.634 52.381 0.00 0.00 0.00 3.85
343 344 2.858622 CATATGTGCATAGGCCCGG 58.141 57.895 0.00 0.00 40.13 5.73
344 345 1.002134 ATATGTGCATAGGCCCGGC 60.002 57.895 0.00 0.00 40.13 6.13
639 640 4.812476 CGGTCATTGCCGCGGAGA 62.812 66.667 33.48 17.26 45.47 3.71
647 648 1.971481 TTGCCGCGGAGAGTATACTA 58.029 50.000 33.48 1.62 0.00 1.82
648 649 1.971481 TGCCGCGGAGAGTATACTAA 58.029 50.000 33.48 0.00 0.00 2.24
676 677 1.301479 GAACGCGTCCCCTTCAGTT 60.301 57.895 14.44 0.00 0.00 3.16
852 865 9.967451 AATTAAAAGGGACAAAAAGAAAAGGAA 57.033 25.926 0.00 0.00 0.00 3.36
1509 1530 1.768275 TCCAAGCTCAAGAACCTGACA 59.232 47.619 0.00 0.00 0.00 3.58
1522 1543 0.962855 CCTGACAGTCCTCGCTCTCA 60.963 60.000 0.93 0.00 0.00 3.27
1597 1618 1.515952 CAGACGCTCAAGCTCGAGG 60.516 63.158 15.58 0.00 39.32 4.63
1605 1626 1.738099 CAAGCTCGAGGTCAACCCG 60.738 63.158 18.90 0.00 38.74 5.28
1830 1851 5.326200 ACTTACACTATAACAAGCTCGCT 57.674 39.130 0.00 0.00 0.00 4.93
1836 1857 2.698855 ATAACAAGCTCGCTGGTGAT 57.301 45.000 0.00 0.00 29.24 3.06
1917 1938 2.835431 CTGACCGGAGCGATCCCT 60.835 66.667 15.35 0.00 0.00 4.20
2029 2050 2.111043 CGCTGGTGTTCCTGTGGT 59.889 61.111 0.00 0.00 38.79 4.16
2034 2055 1.676006 CTGGTGTTCCTGTGGTTGTTC 59.324 52.381 0.00 0.00 34.23 3.18
2173 2194 2.507944 GCGGGCTGTGGATCATCT 59.492 61.111 0.00 0.00 0.00 2.90
2182 2203 4.688966 GGATCATCTCCGCCGCCC 62.689 72.222 0.00 0.00 33.29 6.13
2262 2283 1.677576 CTGCAGCTCCAAGACAACAAA 59.322 47.619 0.00 0.00 0.00 2.83
2347 2368 2.971598 AATGGAGGGCTCACCGGTG 61.972 63.158 29.26 29.26 46.96 4.94
3615 3922 2.184322 GCCAGGATGCTCGTCGAA 59.816 61.111 0.00 0.00 31.97 3.71
3699 4006 2.581409 GGTACGCACCGATCACCG 60.581 66.667 0.00 0.00 34.36 4.94
3700 4007 2.486504 GTACGCACCGATCACCGA 59.513 61.111 0.00 0.00 41.76 4.69
3726 4033 4.406003 ACCTTGATAGTAATCCTCAACGCT 59.594 41.667 0.00 0.00 0.00 5.07
3727 4034 5.597182 ACCTTGATAGTAATCCTCAACGCTA 59.403 40.000 0.00 0.00 0.00 4.26
3737 4044 8.793592 AGTAATCCTCAACGCTAAAATTTCTTT 58.206 29.630 0.00 0.00 0.00 2.52
3743 4050 1.317319 CGCTAAAATTTCTTTGCGGCG 59.683 47.619 0.51 0.51 43.63 6.46
3755 4062 3.941836 GCGGCGCAGTGGCTTATC 61.942 66.667 29.21 0.00 42.02 1.75
3768 4111 3.088532 TGGCTTATCTTTTTCGCCATGT 58.911 40.909 0.00 0.00 45.08 3.21
3770 4113 4.702612 TGGCTTATCTTTTTCGCCATGTTA 59.297 37.500 0.00 0.00 45.08 2.41
4115 4464 1.584380 AACCTCGACGAGAAGACGGG 61.584 60.000 26.11 10.81 38.20 5.28
4217 4566 1.080025 GCAAGGGTAGCTTCGACGT 60.080 57.895 0.00 0.00 0.00 4.34
4218 4567 1.077089 GCAAGGGTAGCTTCGACGTC 61.077 60.000 5.18 5.18 0.00 4.34
4344 4699 3.874543 GTGGAATGTTGTACACAGTGTGA 59.125 43.478 29.58 10.54 39.40 3.58
4352 4707 2.135933 GTACACAGTGTGACAGCCTTC 58.864 52.381 29.58 0.27 36.96 3.46
4437 4792 7.871463 CAGAGATGAGCATTCAGACATACATAA 59.129 37.037 0.00 0.00 36.61 1.90
4512 4867 3.714280 TGTCGATCCCCATCTTTATTGGA 59.286 43.478 0.00 0.00 36.26 3.53
4642 4999 1.945394 CTCCATATGTTGCTGCCACTC 59.055 52.381 5.42 0.00 0.00 3.51
4793 5150 4.023107 GGAAGGTTCGAAGGGAAAAGAAAG 60.023 45.833 0.00 0.00 36.14 2.62
4964 5323 0.321122 CAACCAGCGAAGAAGAGGCT 60.321 55.000 0.00 0.00 37.55 4.58
5033 5392 6.434340 TGAACTTCTTGTAGTGCTCATAGAGA 59.566 38.462 0.00 0.00 0.00 3.10
5045 5404 2.695666 CTCATAGAGACCACCGTCCAAT 59.304 50.000 0.00 0.00 40.12 3.16
5061 5420 0.673437 CAATGCAACCACGGTCCTTT 59.327 50.000 0.00 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 8.684520 TGCATATGTGAATGTATGAATTGTGAA 58.315 29.630 4.29 0.00 0.00 3.18
54 55 9.571816 TGCTACAATTGACATGGATGATTTATA 57.428 29.630 13.59 0.00 0.00 0.98
73 74 9.884636 ATGTGAGTTTAGTGTTATATGCTACAA 57.115 29.630 0.00 0.00 0.00 2.41
74 75 9.313118 CATGTGAGTTTAGTGTTATATGCTACA 57.687 33.333 0.00 0.00 0.00 2.74
75 76 9.314321 ACATGTGAGTTTAGTGTTATATGCTAC 57.686 33.333 0.00 0.00 0.00 3.58
76 77 9.313118 CACATGTGAGTTTAGTGTTATATGCTA 57.687 33.333 21.64 0.00 0.00 3.49
77 78 8.040727 TCACATGTGAGTTTAGTGTTATATGCT 58.959 33.333 24.56 0.00 34.14 3.79
78 79 8.196802 TCACATGTGAGTTTAGTGTTATATGC 57.803 34.615 24.56 0.00 34.14 3.14
79 80 9.973246 GTTCACATGTGAGTTTAGTGTTATATG 57.027 33.333 26.48 0.00 41.13 1.78
80 81 9.162764 GGTTCACATGTGAGTTTAGTGTTATAT 57.837 33.333 26.48 0.00 41.13 0.86
81 82 8.151596 TGGTTCACATGTGAGTTTAGTGTTATA 58.848 33.333 26.48 6.30 41.13 0.98
82 83 6.995686 TGGTTCACATGTGAGTTTAGTGTTAT 59.004 34.615 26.48 0.00 41.13 1.89
83 84 6.350103 TGGTTCACATGTGAGTTTAGTGTTA 58.650 36.000 26.48 7.02 41.13 2.41
84 85 5.189928 TGGTTCACATGTGAGTTTAGTGTT 58.810 37.500 26.48 0.00 41.13 3.32
85 86 4.776349 TGGTTCACATGTGAGTTTAGTGT 58.224 39.130 26.48 0.00 41.13 3.55
86 87 5.947228 ATGGTTCACATGTGAGTTTAGTG 57.053 39.130 26.48 0.00 41.13 2.74
87 88 7.004555 TCTATGGTTCACATGTGAGTTTAGT 57.995 36.000 26.48 14.82 40.82 2.24
88 89 7.905604 TTCTATGGTTCACATGTGAGTTTAG 57.094 36.000 26.48 22.62 40.82 1.85
89 90 8.729756 CATTTCTATGGTTCACATGTGAGTTTA 58.270 33.333 26.48 15.54 40.82 2.01
90 91 7.596494 CATTTCTATGGTTCACATGTGAGTTT 58.404 34.615 26.48 15.79 40.82 2.66
91 92 6.349611 GCATTTCTATGGTTCACATGTGAGTT 60.350 38.462 26.48 15.48 40.82 3.01
92 93 5.124457 GCATTTCTATGGTTCACATGTGAGT 59.876 40.000 26.48 16.66 40.82 3.41
93 94 5.124297 TGCATTTCTATGGTTCACATGTGAG 59.876 40.000 26.48 15.15 40.82 3.51
213 214 2.383527 CCTCAACGAAGCCGAGTGC 61.384 63.158 0.00 0.00 39.50 4.40
225 226 0.670854 GTTGTCGCTCCCTCCTCAAC 60.671 60.000 0.00 0.00 0.00 3.18
240 241 2.522436 TCCCCTGTCGTCGGTTGT 60.522 61.111 0.00 0.00 0.00 3.32
242 243 2.995574 CCTCCCCTGTCGTCGGTT 60.996 66.667 0.00 0.00 0.00 4.44
275 276 0.322816 CATACCCTGTGCTGCACCTT 60.323 55.000 28.17 12.92 32.73 3.50
282 283 0.043334 ACTCCTCCATACCCTGTGCT 59.957 55.000 0.00 0.00 0.00 4.40
302 303 0.631753 CTCTGACCTCCCCTACCTCA 59.368 60.000 0.00 0.00 0.00 3.86
307 308 1.001760 GCACCTCTGACCTCCCCTA 59.998 63.158 0.00 0.00 0.00 3.53
629 630 1.971481 TTAGTATACTCTCCGCGGCA 58.029 50.000 23.51 8.58 0.00 5.69
632 633 4.297299 TGGTTTTAGTATACTCTCCGCG 57.703 45.455 9.12 0.00 0.00 6.46
636 637 9.881529 CGTTCTAGATGGTTTTAGTATACTCTC 57.118 37.037 9.12 0.00 0.00 3.20
637 638 8.351461 GCGTTCTAGATGGTTTTAGTATACTCT 58.649 37.037 9.12 0.47 0.00 3.24
638 639 7.323177 CGCGTTCTAGATGGTTTTAGTATACTC 59.677 40.741 9.12 0.00 0.00 2.59
639 640 7.137426 CGCGTTCTAGATGGTTTTAGTATACT 58.863 38.462 10.87 10.87 0.00 2.12
647 648 2.344025 GGACGCGTTCTAGATGGTTTT 58.656 47.619 15.53 0.00 0.00 2.43
648 649 1.405121 GGGACGCGTTCTAGATGGTTT 60.405 52.381 18.74 0.00 0.00 3.27
676 677 6.071051 GGTTTAGGCAGGGTCAAATTAATTGA 60.071 38.462 0.39 0.00 45.71 2.57
852 865 0.029700 GCCGCGGCCGTTATATTTTT 59.970 50.000 39.89 0.00 34.56 1.94
985 1006 4.838152 CATGGTCGGGTCGCTGGG 62.838 72.222 0.00 0.00 0.00 4.45
1018 1039 0.468400 GCGAGGAGTGGGAGATAGGT 60.468 60.000 0.00 0.00 0.00 3.08
1333 1354 1.000955 CGTGCAGTTGTAGAGGGACTT 59.999 52.381 0.00 0.00 41.55 3.01
1509 1530 1.181741 TGCTGTTGAGAGCGAGGACT 61.182 55.000 0.00 0.00 42.32 3.85
1597 1618 2.357881 GGGGACGAACGGGTTGAC 60.358 66.667 0.00 0.00 0.00 3.18
1629 1650 3.318017 CCTCGTCAAGTTCTTGAACGAT 58.682 45.455 24.48 0.00 35.59 3.73
1712 1733 1.961277 CACACCAACTCCGACAGCC 60.961 63.158 0.00 0.00 0.00 4.85
1917 1938 1.125093 TCAAGGTCCCGAGCCTTTCA 61.125 55.000 3.02 0.00 43.24 2.69
2034 2055 1.419374 CTCCCGTGAGTTTGTTCTCG 58.581 55.000 0.00 0.00 37.28 4.04
2877 3138 1.450312 CTTGTCGGATGACCTGGCC 60.450 63.158 0.00 0.00 44.86 5.36
3018 3297 2.270527 GTGAGCTTCCAGGCCTCC 59.729 66.667 0.00 0.00 0.00 4.30
3189 3481 3.447025 CTTCCCGCCGGTCCAGATC 62.447 68.421 1.90 0.00 0.00 2.75
3699 4006 6.642950 CGTTGAGGATTACTATCAAGGTGATC 59.357 42.308 0.00 0.00 38.26 2.92
3700 4007 6.516718 CGTTGAGGATTACTATCAAGGTGAT 58.483 40.000 0.00 0.00 40.72 3.06
3726 4033 2.287909 ACTGCGCCGCAAAGAAATTTTA 60.288 40.909 14.77 0.00 38.41 1.52
3727 4034 1.139163 CTGCGCCGCAAAGAAATTTT 58.861 45.000 14.77 0.00 38.41 1.82
3737 4044 4.776322 ATAAGCCACTGCGCCGCA 62.776 61.111 12.83 12.83 44.33 5.69
3740 4047 0.811281 AAAAGATAAGCCACTGCGCC 59.189 50.000 4.18 0.00 44.33 6.53
3743 4050 2.519963 GCGAAAAAGATAAGCCACTGC 58.480 47.619 0.00 0.00 37.95 4.40
3752 4059 5.588246 TCTGCATAACATGGCGAAAAAGATA 59.412 36.000 0.00 0.00 0.00 1.98
3755 4062 4.095410 TCTGCATAACATGGCGAAAAAG 57.905 40.909 0.00 0.00 0.00 2.27
3768 4111 0.109039 TGTACGCGCACTCTGCATAA 60.109 50.000 11.36 0.00 45.36 1.90
3770 4113 2.094659 GTGTACGCGCACTCTGCAT 61.095 57.895 11.36 0.00 45.36 3.96
4041 4387 1.237285 GCAGCACGTCCTTCATGGTT 61.237 55.000 0.00 0.00 37.07 3.67
4086 4435 0.598158 CGTCGAGGTTTTTCCGGTGA 60.598 55.000 0.00 0.00 41.99 4.02
4344 4699 0.982704 ACTGCTCATCTGAAGGCTGT 59.017 50.000 0.00 0.00 33.35 4.40
5033 5392 1.901464 GGTTGCATTGGACGGTGGT 60.901 57.895 0.00 0.00 0.00 4.16
5045 5404 2.485795 GCAAAGGACCGTGGTTGCA 61.486 57.895 15.84 0.00 44.53 4.08


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

AutoCloner maintained by Alex Coulton.