Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,640,045	+C	coding (13/534 nt)	rrrQ ←	putative lysozyme

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,640,045	1	.	C	94.7%	50.8 / ‑5.2	19	I5V (ATC→GTC)	rrrQ	putative lysozyme
Reads supporting (aligned to +/- strand):  ref base . (0/0);  major base C (8/10);  minor base A (1/0);  total (9/10)
Fisher's exact test for biased strand distribution p-value = 4.74e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.10e-01

GCCTTATCACGCTCAATGGCGTTGACCTGGTCGCATTTTTCCTTCGACAGTTTCATATTGGGAAAAACGGTTTTTCCATCCACCACTGTGGCACCCCGACAGATGGTCCATATGCCAGAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGAT‑TTTTGTGTTCATAGATATTTATGATGAGGACGCTCGTGCTTATTGGCAGGATTTTCAATCTTAAAGGAGTACTGATGCTGCAGATAAGACTCAACTTTTTCTGACAATTTTTCTGCTACTTCCAGGAAGACTTGCCGGACGCTCCTTCTGGCTGCTGCCTCATAAAACTCCAGCGCAGCTCCTTCAACACGGTCCATGGCGACATCCAGGTCAAAAATTTCACCGTCAAAGCGTTCTTTGTCC  >  NC_000913/1639804‑1640288                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                                    gcCTTATCACGCTCAATGGCGTTGACCTGGTCGCATTTTTCCTTCGACAGTTTCATATTGGGAAAAACGGTTTTTCCATCCACCACTGTGGCACCCCGACAGATGGTCCATATGCCAGAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTgtgt                                                                                                                                                                                                                                             >  2:71380/1‑251 (MQ=255)                             ggTCGCATTTTTCCTTCGACAGTTTCATATTGGAAAAAACGGTTTTTCCATCCACCACTGTGGCACCCCGACAGATGGTCCATATGCCAGAACCATCGCGGTATGCCATTGTGTGGTTCCCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgata                                                                                                                                                                                                                   <  2:230381‑M1/249‑24 (MQ=255)                                           ttCGACAGTTTCATATTGGGAAAAACGGTTTTTCCATCCACCACTGTGGCACCCCGGCAGATGGTCCATATGCCAGAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttg                                                                                                                                                                                                   >  1:193184‑M1/1‑212 (MQ=255)                                                                                                   aCAGATGGTCCAGATGCCAGAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagattcctcctgtagacgcatcgcgcgaccttc                                                                                                                                           <  1:263063‑M1/251‑96 (MQ=255)                                                                                                          gTCCATATGCCAGAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTGCGGCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCTGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgagattcatcataaactttgggatcatactgaagctccccgccataggcctcctgtagacgcatcgcgcgaccttcgggaact                                                                                                                                    <  1:189856‑M1/251‑103 (MQ=255)                                                                                                              atatGCCAGAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaat                                                                                                                                >  2:111692‑M1/1‑145 (MQ=255)                                                                                                                  gCCAGAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatccc                                                                                                                             <  1:284877‑M1/250‑110 (MQ=255)                                                                                                                      gAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgaagacgcatcgcgcgaccttcgggaactaaatcccctttc                                                                                                                        >  2:10289‑M1/1‑137 (MQ=255)                                                                                                                                        aTTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatcccctttccagctataaagcgaagcc                                                                                                      >  1:216645‑M1/1‑119 (MQ=255)                                                                                                                                               ggTTACCTTCTTTTTAGTCCTGATACTGGTAAAGTATCTGAGGAGCAGATGCGCTAGCACCAATCAGCGCCAGAACGGCAGAAGACAGGCCGTATCTGATATTTTGCGTTCCcccgcccgcttcgtcttacgatcttcataataaactttgggatcatactgaagctccccgccagctgcctcctgtagacgcatcgcgcgaccttcgggaactaactcccctttcaagctataacgcgaagccaaacga                                                                                                >  2:263005‑M1/1‑112 (MQ=255)                                                                                                                                                                   aGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCGTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatcccctttccagctataaagcgaagccaaacgaatacctgctgcttgtgcaagt                                                                           <  1:192340‑M1/251‑160 (MQ=255)                                                                                                                                                                          ggTCAAGTATCTGAGGAGCAGATGCGCATGCACCAAGCAGCGCCAGAACGGCAGCCGACAGGCGATATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttactatattcatcataaactttgggatcatactgaagctccccgccagatgcctcgtgtagactgatcgcgcgaccgtcgggagctaaatcccctgtccggctataaagcggagccaaacgaatacctgctgcttgtgcaagttttgtt                                                                     <  1:285817‑M1/250‑166 (MQ=255)                                                                                                                                                                             cAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatcccctttccagctataaagcgaagccaaacgaatacctgctgcttgtgcaagttttgtttttg                                                                 >  2:95840‑M1/1‑82 (MQ=255)                                                                                                                                                                                 tATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatcccctttccagctataaagcgaagccaaacgaatacctgctgcttgtgcaagttttgtttttgaacc                                                             >  2:209468‑M1/1‑78 (MQ=255)                                                                                                                                                                                           gCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatcccctttccagctataaagcgaagccaaacgaatacctgctgcttgtgcaagggttggttttgaaccgaaatacaaa                                                   <  1:111692‑M1/251‑184 (MQ=255)                                                                                                                                                                                                               cAGCGCCTGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCCcccgcccgcttcgtcttacgatattcatcataaactttgggatcatgctgaagctccccgccagatgcctcctgtagacgcatcgcgcgacctgcgggaacgaaatcccctttgcagctataaagcgaaggcaaacgaatacctgctgcttgtgcgattgtggtttttgaaccgaaatacaaaagagcgtcagttttaagcat                               <  1:19303‑M1/251‑204 (MQ=255)                                                                                                                                                                                                                aGCGCCAGAACGGCAGCCGACAGGCCGTATCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatcccctttccagctataaagcgaagccaaacgaatacctgctgcttgtgcaagttttgtttttgaaccgaaatacaaaagagcgtcagttttaagcatt                              <  1:209468‑M1/251‑205 (MQ=255)                                                                                                                                                                                                                  cgcCCGAACGGCAGCCGACGGGCCGTATCGGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgaagctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatcccctttccagctataaagcgaagccaaacgaattcctgctgcttgtgcaagttttgtttttgaaccgaaatacaaaagagcgtcagttttaagcattta                            <  2:241067‑M1/251‑207 (MQ=255)                                                                                                                                                                                                                                            aTCTGATCTTTTGTGTTCAcccgcccgcttcgtcttacgatattcatcataaactttgggatcatactgacgctccccgccagatgcctcctgtagacgcatcgcgcgaccttcgggaactaaatcccctttccagctataaagcgaagccaaacgaatacctgctgcttgtgcaagttttgtttttgaaccgaaatacaaaagagcgtcagttttaagcatttaaaacacctttattgttagtcataact  >  2:48979‑M1/1‑19 (MQ=255)                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                                    GCCTTATCACGCTCAATGGCGTTGACCTGGTCGCATTTTTCCTTCGACAGTTTCATATTGGGAAAAACGGTTTTTCCATCCACCACTGTGGCACCCCGACAGATGGTCCATATGCCAGAACCATCGCGGTATGCCATTGTGTGGTTACCTTCTTTTTCGTCCAGAAACTGGTCAAGTATCTGAGGAGCAGATGCGCCAGCACCAATCAGCGCCAGAACGGCAGCCGACAGGCCGTATCTGAT‑TTTTGTGTTCATAGATATTTATGATGAGGACGCTCGTGCTTATTGGCAGGATTTTCAATCTTAAAGGAGTACTGATGCTGCAGATAAGACTCAACTTTTTCTGACAATTTTTCTGCTACTTCCAGGAAGACTTGCCGGACGCTCCTTCTGGCTGCTGCCTCATAAAACTCCAGCGCAGCTCCTTCAACACGGTCCATGGCGACATCCAGGTCAAAAATTTCACCGTCAAAGCGTTCTTTGTCC  >  NC_000913/1639804‑1640288

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑