Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,560,455 +G intergenic (+589/+167) rtcR → / ← glpG DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,560,4551.G95.7% 67.2 / ‑3.8 23intergenic (+589/+167)rtcR/glpGDNA‑binding transcriptional activator RtcR/rhomboid protease GlpG
Reads supporting (aligned to +/- strand):  ref base . (1/0);  new base G (9/13);  total (10/13)
Fisher's exact test for biased strand distribution p-value = 4.35e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.06e-01

GAGATTGTTGGTGACAATGCGCAAATTGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑C‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCATTGAGCGAATCAACAAAAGCCATCGCTAAACCCACGGCTAACCCGGCGATGTGTGCTC  >  NC_000913/3560238‑3560698
                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                    
gagaTTGTTGGTGACAATGCGCAAATTGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTgt                                                                                                                                                                                                                     >  1:5033/1‑250 (MQ=255)
     tgttgGTGACAATGCGCAATTTGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGGGCCTTTGGGGATTTGCTCCGCCATTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTc                                                                                                                                                                                                                 <  1:142176/250‑1 (MQ=255)
      gttgGTGACACTGCGCAAAATGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGACACTTTGCGGGCGATGCGCTCTTTTTCTTCGTTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGGAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTcgc                                                                                                                                                                                                               >  2:125683/1‑251 (MQ=255)
                 ggcgcAAATTGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGGGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGCAGGCAGCGCCGCACCGCCATGATGGCGC‑CGGATCAGGTTTTGCTCCGCCCGCCCATGGAGATCGCGGCGAATAGTc                                                                                                                                                                                                    >  2:67954/2‑251 (MQ=255)
                  gcgcAAATGGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCTTCGGGCCATTGGGTATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTc                                                                                                                                                                                                    <  1:38399/250‑1 (MQ=255)
                              gtgATTGAGCAGTGCGGCCCCTACCGTTTCCGGGGTGGTGCCGATATCGATAACCAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGTTCGGGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACgg                                                                                                                                                                                       <  1:200259/251‑1 (MQ=255)
                                       cAGTGCGTGCGCTACCGCTACCGGAGTGGTGCCGACATCGATAACCAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTACGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACAGGAAGGCAGCGCCGCACCGCCATGATGACGC‑AGGATCAGGTTTTGCCTCGCCAGCTCCTTGGGGTCGAGGCGAATAGTCTGCGGGCTGACGGAGaaaggc                                                                                                                                                                               >  2:14552/1‑247 (MQ=255)
                                             gtgcgCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTc                                                                                                                                                                                                                 >  1:191077/1‑210 (MQ=255)
                                                                         atatCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGATCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgctg                                                                                                                                            >  1:108325/1‑251 (MQ=255)
                                                                             cgaaacaaggcctagttccATTGGGGTTTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTTTGGGGGGCCTTGCGACCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCCCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTa                                                                                                                                        <  2:19830/234‑1 (MQ=255)
                                                                                      gCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCg                                                                                                                               >  2:150885/1‑251 (MQ=255)
                                                                                                       ttttctgcggcctcTTTGGGGGGGATGCGCTCTTTTTCTTCGTTCTGGGTGGCTTTGCGATCGTGCCACGGCGTGTTACCC‑GAACGGGAAGCCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGAc                                                                                                               <  2:86964/237‑1 (MQ=255)
                                                                                                              ccGCCTCTTTGCGGGCGATGCGCTTTTTTTCTTCGTTCTGGGTGCCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTgtgt                                                                                                        <  1:69496/250‑1 (MQ=255)
                                                                                                                   ccTTTGCGGGGGACGCGCTCTTTTTCGTCGGTCGGGGGGGCCTTGCGTTCGTGCCCCGGCGT‑TTAACCCGAACTGGAAGGCGGCCCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGTCTTACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTgtttgttt                                                                                                  <  2:108325/250‑1 (MQ=255)
                                                                                                                       tGCGGGCGCTGCGCGCTTGTTCTGCGGTCGGGGTGTCCTTGTAATCGGGCCACGTCTTGTTACCC‑GAACTGGATGGCGGCGCGGCACCGCCATGATGGCGT‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTCCTAGCTCTTCGGTCCTGACATATCCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCAt                                                                                               <  2:112797/250‑1 (MQ=255)
                                                                                                                         cGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGGCGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCCGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCAtttt                                                                                            >  2:164614/1‑250 (MQ=255)
                                                                                                                                ggcgcTCTTTTTCTTCGGTCTGGGTGGCCTTGCGGTCGTGCCGGGGCGTGTTAACC‑GAAGTGGAAGGACGCGCGGCACCGCCAGGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGGACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTGGTTTCATTTATAAATcc                                                                                     <  1:160941/250‑1 (MQ=255)
                                                                                                                                        ttttCTTCGGTCGGGGTGGCCTTGCGCTCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAat                                                                              <  1:224431/250‑1 (MQ=255)
                                                                                                                                                 gTCTGGGTGGCCTTGCGATCGTGCCCCGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTAttttcgtt                                                                    <  1:219312/251‑1 (MQ=255)
                                                                                                                                                            cTTGCGATCGTGCCACGGCGTGTTAACC‑GCACTGGAAGGCAGCGCCGCACCGCCATGATGGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctg                                                                                                                                               >  1:186871/1‑165 (MQ=255)
                                                                                                                                                                                   ttatcctaactggcagcctgcgccgcgccGCCATTATGGCGC‑AGGATCAGGTTTTGCTCCGCCATCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATGCCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCATTGAGCGAATCAACAAAAGCCATc                                    <  2:110202/231‑1 (MQ=255)
                                                                                                                                                                                         gAACTGCAAGACAGCGCCGCACCGCCCTGATGGC‑CCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGCCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGCATTATTTTCGTTTTCGCGCATTGAGCGAATCAACAAAAGCCATCGCTAAAc                             >  2:134806/1‑251 (MQ=255)
                                                                                                                                                                                                                     gatgGCGC‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCATTGAGCGAATCAACAAAAGCCATCGCTAAACCCACGGCTAACCCGGCGATGTGTGCTc  <  1:204141/250‑1 (MQ=255)
                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                    
GAGATTGTTGGTGACAATGCGCAAATTGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACC‑GAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑C‑AGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCATTGAGCGAATCAACAAAAGCCATCGCTAAACCCACGGCTAACCCGGCGATGTGTGCTC  >  NC_000913/3560238‑3560698

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑