BLASTN 2.2.10 [Oct-19-2004]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= QAF12e06.yg.2.1
(561 letters)
Database: Sorghum_nucl_with_EST.fasta
832,831 sequences; 491,359,669 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|AC169370.3| Sorghum bicolor clone SB_BBc0011I20, WORKING... 414 e-114
gb|CN131003.1|CN131003 RHOH1_45_F03.b1_A002 Acid- and alkal... 129 3e-028
gb|BZ329463.1|BZ329463 hv86a10.g1 WGS-SbicolorF (JM107 adap... 105 4e-021
gb|CW123710.1|CW123710 104_503_11111362_116_34698_045 Sorgh... 50 2e-004
gb|BZ628082.1|BZ628082 ih57h02.g1 WGS-SbicolorF (DH5a methy... 44 0.014
gb|CW037384.1|CW037384 104_269_10504310_114_30383 Sorghum m... 44 0.014
gb|BI212063.1|BI212063 IP1_61_B03.g1_A002 Immature pannicle... 44 0.014
gb|CD210962.1|CD210962 HS1_58_B05.b1_A012 Heat-shocked seed... 44 0.014
gb|CF485968.1|CF485968 POL1_34_H03.g1_A002 Pollen Sorghum b... 42 0.054
gb|CL168060.1|CL168060 104_365_10810537_114_31804_217 Sorgh... 40 0.21
gb|CW066281.1|CW066281 104_313_10523601_115_30147 Sorghum m... 40 0.21
gb|CW066282.1|CW066282 104_313_10523601_115_30149 Sorghum m... 40 0.21
gb|CW066304.1|CW066304 104_313_10523613_115_30147 Sorghum m... 40 0.21
gb|CW257849.1|CW257849 104_723_11227557_116_35158_087 Sorgh... 40 0.21
>gb|AC169370.3| Sorghum bicolor clone SB_BBc0011I20, WORKING DRAFT SEQUENCE, 9
unordered pieces
Length = 143922
Score = 414 bits (209), Expect = e-114
Identities = 278/301 (92%)
Strand = Plus / Minus
Query: 1 acatatctatcttcggcctttcacatttcctcttgcctgaccttcttcctagcttgaata 60
|||||||||| ||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 66936 acatatctattttcggccattcacatttcctcttgcctgaccttcttcctagcttgaata 66877
Query: 61 gagtagttgttctggatgatgatttgattgtccagaaggacttgtcacctctatggaacc 120
||||||||||||||||||||||||||||||||||||| ||||||||| |||| |||||||
Sbjct: 66876 gagtagttgttctggatgatgatttgattgtccagaaagacttgtcatctctgtggaacc 66817
Query: 121 tcgatatgggtggtaaagtgattggagcagtccagttctgtggagtgagattagggcagc 180
||||||||||||||||||||||||| || ||||||||||||| |||||||||||| |||
Sbjct: 66816 tcgatatgggtggtaaagtgattggtgctgtccagttctgtgaagtgagattaggccagt 66757
Query: 181 tgaaaccttatatagcagaccataacgtcgatgatgattcatgtgtgtggttgtcgggcc 240
||||||||||||| ||||||||||| ||| ||| | |||||||||||||||| || |||
Sbjct: 66756 tgaaaccttatatggcagaccataatgtcaatgctaattcatgtgtgtggttatctggct 66697
Query: 241 tgaatgtcattgaattggataaatggagggacactggcattaccagtttgcatgatcaat 300
|||||||| |||||||||||||||||||||||| |||||||| |||||| |||||||||
Sbjct: 66696 tgaatgtcgttgaattggataaatggagggacatgggcattacaagtttgtatgatcaat 66637
Query: 301 c 301
|
Sbjct: 66636 c 66636
Score = 317 bits (160), Expect = 6e-085
Identities = 217/236 (91%)
Strand = Plus / Minus
Query: 310 agttgcgaaaggacagcctgaaatctcagcgactgcaagcactccctgcaggtctacttg 369
|||||||||||||| |||||||||| |||||| | || |||||||||||| || ||||||
Sbjct: 66467 agttgcgaaaggaccgcctgaaatcacagcgatttcaggcactccctgcaagtttacttg 66408
Query: 370 cctttcaagacctggtatatcctttggaagattcatgggttgagtcaggccttggacatg 429
|||||||||| |||||||||||||||||||||||||||||| | ||||||||||||||||
Sbjct: 66407 cctttcaagatctggtatatcctttggaagattcatgggttcaatcaggccttggacatg 66348
Query: 430 attatggaatcagccatgtcgatatagagaaggctgctactctgcactacaatggtgtga 489
|||||||||| || || ||||||||||| |||||||||||||||||||| ||||||||||
Sbjct: 66347 attatggaattagtcacgtcgatatagaaaaggctgctactctgcactataatggtgtga 66288
Query: 490 tgaaaccttggcttgacttggggatacttgattacaagaactactggaggaagtac 545
||||||||||||||||||||||||||| |||||| |||| |||||||||| |||||
Sbjct: 66287 tgaaaccttggcttgacttggggatacatgattataagagctactggagggagtac 66232
Score = 174 bits (88), Expect = 6e-042
Identities = 183/215 (85%), Gaps = 6/215 (2%)
Strand = Plus / Minus
Query: 310 agttgcgaaaggacagcctgaaatctcagcgactgcaagcactccctgcaggtctacttg 369
||||| ||||| ||||||||||||| |||||| |||||||| |||| || ||||||
Sbjct: 51916 agttgagaaagaacagcctgaaatcacagcgaacacaagcactggttgcaagtttacttg 51857
Query: 370 cctttcaagacctggtatatcctttggaagattcatgggttgagtcaggccttggacatg 429
||||||||| || ||||||||||||||||||||||||||| | ||||||||||||||||
Sbjct: 51856 cctttcaagttctagtatatcctttggaagattcatgggttcaatcaggccttggacatg 51797
Query: 430 attatggaatcagccatgtcgatatagagaaggctgctactctgcactacaatggtgtga 489
||| ||||||||| ||||| ||||||| ||||||||||||||||| | ||||||||
Sbjct: 51796 attgtggaatcagttatgtcaatatagaaaaggctgctactctgcagcataatggtgt-- 51739
Query: 490 tgaaaccttggcttgacttggggatacttgattac 524
||||||||||||||||||| | |||||||||
Sbjct: 51738 ----accttggcttgacttggggctgcttgattac 51708
Score = 139 bits (70), Expect = 3e-031
Identities = 100/110 (90%)
Strand = Plus / Minus
Query: 192 atagcagaccataacgtcgatgatgattcatgtgtgtggttgtcgggcctgaatgtcatt 251
|||||||||||||| ||| ||| | ||||||||||||||||||| |||||||||||||||
Sbjct: 52195 atagcagaccataatgtcaatgctaattcatgtgtgtggttgtctggcctgaatgtcatt 52136
Query: 252 gaattggataaatggagggacactggcattaccagtttgcatgatcaatc 301
||||||||||||||||||||||| ||||| || |||||| ||||| ||||
Sbjct: 52135 gaattggataaatggagggacaccggcatcacgagtttgtatgattaatc 52086
Score = 137 bits (69), Expect = 1e-030
Identities = 141/163 (86%), Gaps = 4/163 (2%)
Strand = Plus / Minus
Query: 26 tttcctcttgcctgaccttcttcctagcttgaatagagtagttgttctggatgatgattt 85
|||||||||||||||||||| ||| |||||| ||||||||||||||||| ||||||||
Sbjct: 52390 tttcctcttgcctgaccttc---ctaccttgaacagagtagttgttctggacgatgattt 52334
Query: 86 gattgtccagaaggacttgtcacctctatggaacctcgatatgggtggtaaagtgattgg 145
|||||| ||||| || |||| | || | | |||||| ||||||||| |||||||||| ||
Sbjct: 52333 gattgtgcagaaagatttgttatctttgttgaaccttgatatgggtagtaaagtgatcgg 52274
Query: 146 agcagtccagttct-gtggagtgagattagggcagctgaaacc 187
|| |||||||||| ||| |||||||||||||||| |||||||
Sbjct: 52273 tgctgtccagttctggtgaagtgagattagggcagttgaaacc 52231
>gb|CN131003.1|CN131003 RHOH1_45_F03.b1_A002 Acid- and alkaline-treated roots Sorghum
bicolor cDNA clone RHOH1_45_F03_A002 3', mRNA sequence
Length = 728
Score = 129 bits (65), Expect = 3e-028
Identities = 134/155 (86%), Gaps = 4/155 (2%)
Strand = Plus / Plus
Query: 26 tttcctcttgcctgaccttcttcctagcttgaatagagtagttgttctggatgatgattt 85
|||||||||||||||||||| ||| |||||| ||||||||||||||||| ||||||||
Sbjct: 560 tttcctcttgcctgaccttc---ctaccttgaacagagtagttgttctggacgatgattt 616
Query: 86 gattgtccagaaggacttgtcacctctatggaacctcgatatgggtggtaaagtgattgg 145
|||||| ||||| || |||| | || | | |||||| ||||||||| |||||||||| ||
Sbjct: 617 gattgtgcagaaagatttgttatctttgttgaaccttgatatgggtagtaaagtgatcgg 676
Query: 146 agcagtccagttct-gtggagtgagattagggcag 179
|| |||||||||| ||| ||||||||||||||||
Sbjct: 677 tgctgtccagttctggtgaagtgagattagggcag 711
>gb|BZ329463.1|BZ329463 hv86a10.g1 WGS-SbicolorF (JM107 adapted methyl filtered) Sorghum
bicolor genomic clone hv86a10 5', DNA sequence
Length = 206
Score = 105 bits (53), Expect = 4e-021
Identities = 77/85 (90%)
Strand = Plus / Plus
Query: 217 attcatgtgtgtggttgtcgggcctgaatgtcattgaattggataaatggagggacactg 276
||||||||||||||||||| || |||||||||||||||||| ||||||||||| |||| |
Sbjct: 6 attcatgtgtgtggttgtctggactgaatgtcattgaattgcataaatggaggaacaccg 65
Query: 277 gcattaccagtttgcatgatcaatc 301
|||| || |||||||||||| ||||
Sbjct: 66 gcatcacgagtttgcatgattaatc 90
>gb|CW123710.1|CW123710 104_503_11111362_116_34698_045 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 11111362, DNA
sequence
Length = 293
Score = 50.1 bits (25), Expect = 2e-004
Identities = 51/59 (86%), Gaps = 3/59 (5%)
Strand = Plus / Minus
Query: 26 tttcctcttgcctgaccttcttcctagcttgaatagagtagttgttctggatgatgatt 84
|||| ||||||||||||||| | | |||||| ||||||||||||||||| |||||||
Sbjct: 207 tttcgtcttgcctgaccttcgttc---cttgaacagagtagttgttctggacgatgatt 152
Score = 40.1 bits (20), Expect = 0.21
Identities = 23/24 (95%)
Strand = Plus / Minus
Query: 164 agtgagattagggcagctgaaacc 187
|||||||||||||||| |||||||
Sbjct: 69 agtgagattagggcagttgaaacc 46
>gb|BZ628082.1|BZ628082 ih57h02.g1 WGS-SbicolorF (DH5a methyl filtered) Sorghum bicolor
genomic clone ih57h02 5', DNA sequence
Length = 469
Score = 44.1 bits (22), Expect = 0.014
Identities = 55/66 (83%)
Strand = Plus / Minus
Query: 472 tgcactacaatggtgtgatgaaaccttggcttgacttggggatacttgattacaagaact 531
||||||||||||| ||||||||||||||||| || || |||| || |||||||| |
Sbjct: 253 tgcactacaatggcaacatgaaaccttggcttgaattaggtataccggactacaagaagt 194
Query: 532 actgga 537
||||||
Sbjct: 193 actgga 188
>gb|CW037384.1|CW037384 104_269_10504310_114_30383 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 10504310, DNA
sequence
Length = 843
Score = 44.1 bits (22), Expect = 0.014
Identities = 55/66 (83%)
Strand = Plus / Minus
Query: 472 tgcactacaatggtgtgatgaaaccttggcttgacttggggatacttgattacaagaact 531
||||||||||||| ||||||||||||||||| || || |||| || |||||||| |
Sbjct: 763 tgcactacaatggcaacatgaaaccttggcttgaattaggtataccggactacaagaagt 704
Query: 532 actgga 537
||||||
Sbjct: 703 actgga 698
>gb|BI212063.1|BI212063 IP1_61_B03.g1_A002 Immature pannicle 1 (IP1) Sorghum bicolor cDNA,
mRNA sequence
Length = 648
Score = 44.1 bits (22), Expect = 0.014
Identities = 55/66 (83%)
Strand = Plus / Plus
Query: 472 tgcactacaatggtgtgatgaaaccttggcttgacttggggatacttgattacaagaact 531
||||||||||||| ||||||||||||||||| || || |||| || |||||||| |
Sbjct: 365 tgcactacaatggcaacatgaaaccttggcttgaattaggtataccggactacaagaagt 424
Query: 532 actgga 537
||||||
Sbjct: 425 actgga 430
>gb|CD210962.1|CD210962 HS1_58_B05.b1_A012 Heat-shocked seedlings Sorghum bicolor cDNA
clone HS1_58_B05_A012 3', mRNA sequence
Length = 733
Score = 44.1 bits (22), Expect = 0.014
Identities = 55/66 (83%)
Strand = Plus / Plus
Query: 472 tgcactacaatggtgtgatgaaaccttggcttgacttggggatacttgattacaagaact 531
||||||||||||| ||||||||||||||||| || || |||| || |||||||| |
Sbjct: 266 tgcactacaatggcaacatgaaaccttggcttgaattaggtataccggactacaagaagt 325
Query: 532 actgga 537
||||||
Sbjct: 326 actgga 331
>gb|CF485968.1|CF485968 POL1_34_H03.g1_A002 Pollen Sorghum bicolor cDNA clone
POL1_34_H03_A002 5', mRNA sequence
Length = 620
Score = 42.1 bits (21), Expect = 0.054
Identities = 42/49 (85%)
Strand = Plus / Plus
Query: 489 atgaaaccttggcttgacttggggatacttgattacaagaactactgga 537
||||||||||||||||| ||||| |||| ||||| | ||| |||||||
Sbjct: 214 atgaaaccttggcttgaattgggtataccagattataggaagtactgga 262
>gb|CL168060.1|CL168060 104_365_10810537_114_31804_217 Sorghum methylation-filtered
library (LibID: 104) Sorghum bicolor genomic clone
10810537, DNA sequence
Length = 788
Score = 40.1 bits (20), Expect = 0.21
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 26 tttcctcttgcctgaccttc 45
||||||||||||||||||||
Sbjct: 38 tttcctcttgcctgaccttc 19
>gb|CW066281.1|CW066281 104_313_10523601_115_30147 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 10523601, DNA
sequence
Length = 452
Score = 40.1 bits (20), Expect = 0.21
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 198 gaccataacgtcgatgatga 217
||||||||||||||||||||
Sbjct: 200 gaccataacgtcgatgatga 181
>gb|CW066282.1|CW066282 104_313_10523601_115_30149 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 10523601, DNA
sequence
Length = 372
Score = 40.1 bits (20), Expect = 0.21
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 198 gaccataacgtcgatgatga 217
||||||||||||||||||||
Sbjct: 200 gaccataacgtcgatgatga 181
>gb|CW066304.1|CW066304 104_313_10523613_115_30147 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 10523613, DNA
sequence
Length = 454
Score = 40.1 bits (20), Expect = 0.21
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 198 gaccataacgtcgatgatga 217
||||||||||||||||||||
Sbjct: 200 gaccataacgtcgatgatga 181
>gb|CW257849.1|CW257849 104_723_11227557_116_35158_087 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 11227557, DNA
sequence
Length = 710
Score = 40.1 bits (20), Expect = 0.21
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 114 tggaacctcgatatgggtgg 133
||||||||||||||||||||
Sbjct: 219 tggaacctcgatatgggtgg 200
Database: Sorghum_nucl_with_EST.fasta
Posted date: Feb 7, 2006 2:54 PM
Number of letters in database: 491,359,669
Number of sequences in database: 832,831
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 121,905
Number of Sequences: 832831
Number of extensions: 121905
Number of successful extensions: 31032
Number of sequences better than 0.5: 14
Number of HSP's better than 0.5 without gapping: 14
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 30990
Number of HSP's gapped (non-prelim): 33
length of query: 561
length of database: 491,359,669
effective HSP length: 19
effective length of query: 542
effective length of database: 475,535,880
effective search space: 257740446960
effective search space used: 257740446960
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)