Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,729,440	2 bp→TT	noncoding (105‑106/160 nt)	xylZ ←	small RNA XylZ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,729,440	0	C	T	100.0%	54.0 / NA	20	noncoding (106/160 nt)	xylZ	small RNA XylZ
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (12/8);  total (12/8)
*	NC_000913	3,729,441	0	C	T	100.0%	56.0 / NA	19	noncoding (105/160 nt)	xylZ	small RNA XylZ
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (11/8);  total (11/8)

TTCATTGCGCGATCAGTTGCCTGCCACCACTGTTCCGGGTCTTGTTCCGACCAGAGTGGATGCGGGCGCGAAACGGTCAGCTTTTCCGTTTGCGCAGCAACCACCTCACCCTGCTCGTTGAGCAAAATAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGCCGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGATGCACCGGAGACAAATGATGTTCCTGAGCATATTTGGCTAAATCTGCCAGTGACATTTGGCCTTTCAGGATTTGCTGGCCCAATTCGCTATTCCAGCCGGAATAACGCTGCGCGATGCGTTTATCCAGCTCGCCATCTTCAATCATGCGCGCTGCAATTTTCAGCGCCAGTGCCATC  >  NC_000913/3729202‑3729680                                                                                                                                                                                                                                               ||                                                                                                                                                                                                                                                ttCATTGCGCGATCAGTTGCCTGCCACCACTGTTCCGGGTCTTGTTCCGACCAGAGTGGATGCGGGCGCGAAACGGTCAGCTTTTCCGTTTGCGCAGCAACCACCTCACCCTGCTCGTTGAGCAAAATAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATATCGATCGTGCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTc                                                                                                                                                                                                                                       <  1:335617/250‑1 (MQ=255)                       gccgccacTGTTCCGGGTCTTGTTCCGACCAGAGTGGATGCGGGCGCGAAACGGTCAGCTTTTCCGTTTGCGCAGCAACCACCTCACCCTGCTCGTTGAGCAAAATAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATAGCGATCGTTCCTTAAAAAAATGCCCGTTATCGCTACCGATAACCGGGCCAACGGACGGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAg                                                                                                                                                                                                                  <  1:262750/245‑1 (MQ=255)                                               ccGACCAGAGTGGATGCGGGCGCGAAACGGTCAGCTTTTCCGTTTGCGCAGCAACCACTTCACCCTGCTCGTTGAGCAAAGTAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACCTATCGATCGTTCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCACCGGTCTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCAc                                                                                                                                                                                        >  1:49015/1‑251 (MQ=255)                                                          ggATGCGGGCGCGAAACGGTCAGCTTTTCCGTTTGCGCAGCAACCACCTCACCCTGCTCGTTGAGCAAAATAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTcn                                                                                                                                                                                                           <  1:92375/221‑2 (MQ=255)                                                               cGGGCGCGAAACGGTCAGCTTTTCCGTTTGCGCAGCCACCACCTCACCCTGCCCGTTGAGCAAAATAAATTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATATCGATCGTTCCTTAAACAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGATGc                                                                                                                                                                                >  1:333941/1‑243 (MQ=255)                                                                 ggCGCGAAACGGTCAGCTTTTCCGTTTGCGCAGAAACCACCCCACCCTGCTCCTAGCGCAACATACCTTTTACGCCCGAGGGGCCAAGATCTATCCCGATATACCTATCGATCGTTGCTTAACAAAATGCCCGGTATCCCTAACGATAACCGGGCCACCGGACTGCCCAGGTCGTTGTTATTTGTCGAACAGATAATGGATTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGAt                                                                                                                                                                                  >  1:155825/1‑239 (MQ=255)                                                                           ngTCAGCTTTTCCGTTTGCGCAGCAACCACCTCACCCTGCTCGTTGAGCAAAATAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGATGCACCGGAGACAAATGATGTTc                                                                                                                                                            >  1:216228/2‑251 (MQ=255)                                                                            gTCAGCTTTTCCGTTTGCGCAGCAACCACCCAACCCTGCTCGTTGAGCAAACTAACTTTTACGCCAGAGGTGCCAAGATCTCACCAGGTATACATATCGATCGTTCCCTCACAAAATCACCGGTATCGCTACCGATAACCGGACCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTACTGGAGACCACTCTGATGCAACAAAGCAAAATGATGTTcc                                                                                                                                                           >  1:317426/1‑251 (MQ=255)                                                                                          ttGCGCAGCAACCACCTCACCCTGCTCGTTGAGCAAAATAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCACCGGACTGCACAGGTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCATTTGTTCCTGGCGACCACTCTGCTGCACCGGAGACAAATGATGGTCCTGAGCATATTTgtc                                                                                                                                             >  1:1259/1‑249 (MQ=255)                                                                                            gcgcAGCAACCACCTCACCCTGCTCGTTGAGCAAAATAACTTTTACGCCCGAGCTGCCAAGATCTATCCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGTATCTCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCAc                                                                                                                                                                                        <  1:51583/206‑1 (MQ=255)                                                                                                                    cGTTGAGCAAAATAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGGATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTGTCCAGTTGTTc                                                                                                                                                                                                   <  1:109211/171‑1 (MQ=255)                                                                                                                                                   nncANNNNNTATNCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGct                                                                                                                                                                                             <  2:222017/144‑2 (MQ=255)                                                                                                                                                    ccAAGATCTATCCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGATGCACCGGAGACAAat                                                                                                                                                                   >  1:111225/1‑171 (MQ=255)                                                                                                                                                                                      cTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGATGCACCGGAGACAAATGATGTTCCTGAGCATATTTGGCTAAATCTGCCAGTGACATTTGTCCTTTCAGGATTTGCTGGCCCAATTCGCTATTcc                                                                                     <  1:300280/215‑1 (MQ=255)                                                                                                                                                                                             aaaTGCCAGGTATCGCTACAGATAACCGGGCCAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTACAGTTGTTCCTGGCGACCACTCTGATGCACCGGAGACAACTGCTGTTCCTGAGCATATTTGGCTAAATCTGCCAGTGACATTTGGCCTTTCAGGATTTGCTGGCCCAATTCGCTATTCCAGCAGGAATCACGCTGCGCGATGCGTTTATCCAGCTCGCCATc                                          >  1:271755/1‑251 (MQ=255)                                                                                                                                                                                                                           ccAACNGANTNCANNGNTAGTNGTTATTTGTCGAACAGATAATGGTTTACCa                                                                                                                                                                                                                   >  2:181862/1‑52 (MQ=255)                                                                                                                                                                                                                           ccAACGGACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCa                                                                                                                                                                                                                   <  1:181862/52‑1 (MQ=255)                                                                                                                                                                                                                                ggACTGCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGCTGCACCGGAGACAAATGATGTTCCTGAGCATATTTGGCTAAATCTGCCAGTGACATTTGGCCTTTCAGGATTTGCTGGCCCAATTCGCTATTCCAGCCGGAATAACGCTGCGCGATGCGTTTATCCAGCTCGCCATCTTCAATCATGCGCGCTGCAATTTTCAGCGCCAGTg       >  1:170891/1‑251 (MQ=255)                                                                                                                                                                                                                                     ncacaGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGATGCACCGGAGACAAATGATGTTCCTGAGCATATTTGGCTAAATCTGCCAGTGACATTTGGCCTTTCAGGATTTGCTGGCCCAATTCGCTATTCCAGCCGGAATAACGCTGCGCGATGCGTTTATCCAGCTCGCCATCTTCAATCATGCGCGCTGCAATTTTCAGCGCCAGTGCCATc  >  1:87930/2‑251 (MQ=255)                                                                                                                                                                                                                                     gCACAGTTAGTTGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGATGCACCGGCGACAAATGATGTTCCTGAGCATATTTGCCTCACTCTGCCAGTGACATTTGGCCTTTCAGGATTTGCTGGCCCAATTCGCTATTACAGCCGGAATAACGCTGCGCGATGCGTTTATCAAGCTCGCCATCTTCAATCATGCGCGCTGCAATTTTCAGCGCCCGTGCCATc  >  1:141936/1‑251 (MQ=255)                                                                                                                                                                                                                                               ||                                                                                                                                                                                                                                                TTCATTGCGCGATCAGTTGCCTGCCACCACTGTTCCGGGTCTTGTTCCGACCAGAGTGGATGCGGGCGCGAAACGGTCAGCTTTTCCGTTTGCGCAGCAACCACCTCACCCTGCTCGTTGAGCAAAATAACTTTTACGCCCGAGGTGCCAAGATCTATCCCGATATACATATCGATCGTTCCTTAAAAAAATGCCCGGTATCGCTACCGATAACCGGGCCAACGGACTGCACAGTTAGCCGTTATTTGTCGAACAGATAATGGTTTACCAGATTTTCCAGTTGTTCCTGGCGACCACTCTGATGCACCGGAGACAAATGATGTTCCTGAGCATATTTGGCTAAATCTGCCAGTGACATTTGGCCTTTCAGGATTTGCTGGCCCAATTCGCTATTCCAGCCGGAATAACGCTGCGCGATGCGTTTATCCAGCTCGCCATCTTCAATCATGCGCGCTGCAATTTTCAGCGCCAGTGCCATC  >  NC_000913/3729202‑3729680

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑