Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A13 F1 I2 R1	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,056,064	G→A	noncoding (82/183 nt)	ssrS →	6S RNA inhibits RNA polymerase promoter binding

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,056,064	0	G	A	100.0%	115.8 / NA	37	noncoding (82/183 nt)	ssrS	6S RNA inhibits RNA polymerase promoter binding
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (16/21); total (16/21)

TCGGTTTACTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTGAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATGACGCA  >  NC_000913/3055948‑3056194

tCGGTTTACTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCgaga                                                                                                              <  2:743076/139‑1 (MQ=255)

tCGGTTTACTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCgaga                                                                                                              <  2:127161/139‑1 (MQ=255)

       aCTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTa                                                                                                       >  1:724166/1‑139 (MQ=255)

             gTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTg                                                                                                 >  1:485354/1‑139 (MQ=255)

              tAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAg                                                                                                                                  >  2:718878/1‑105 (MQ=255)

              tAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAg                                                                                                                                  <  1:718878/105‑1 (MQ=255)

                 agTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGcgac                                                                                             <  2:485354/139‑1 (MQ=255)

                  gTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGcgacg                                                                                            <  1:167930/139‑1 (MQ=255)

                    aaCCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCgacgac                                                                                          <  2:589313/139‑1 (MQ=255)

                     aCCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCgg                                                                                                                         <  1:152317/107‑1 (MQ=255)

                     aCCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCgg                                                                                                                         >  2:152317/1‑107 (MQ=255)

                     aCCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCATTAAAACTGCGACGaca                                                                                         >  1:763974/1‑139 (MQ=255)

                       cGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGAcaca                                                                                       >  2:529724/1‑139 (MQ=255)

                         tGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACAtt                                                                                     <  1:289473/139‑1 (MQ=255)

                         tGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACAtt                                                                                     <  2:258959/139‑1 (MQ=255)

                         tGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACAtt                                                                                     >  1:317853/1‑139 (MQ=255)

                                 aaaTTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGa                                                                             <  2:186854/139‑1 (MQ=255)

                                              aTGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttcaa                                                                <  2:650536/139‑1 (MQ=255)

                                                 ttCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttcaaggg                                                             >  1:253733/1‑139 (MQ=255)

                                                 ttCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttcaaggg                                                             >  2:312905/1‑139 (MQ=255)

                                                    gCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTa                                                          <  2:724166/139‑1 (MQ=255)

                                                                  ccccTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCggcggc                                            <  2:319412/139‑1 (MQ=255)

                                                                      tGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCAtct                                        >  2:65709/1‑139 (MQ=255)

                                                                             atatTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGAt                                 <  1:65709/139‑1 (MQ=255)

                                                                              tatTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGAtt                                <  2:399494/139‑1 (MQ=255)

                                                                                        cacaAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTAt                      >  2:89259/1‑139 (MQ=255)

                                                                                        cacaAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTAt                      >  1:712851/1‑139 (MQ=255)

                                                                                          caAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttc                                                                  >  2:537988/1‑93 (MQ=255)

                                                                                          caAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttc                                                                  <  1:537988/93‑1 (MQ=255)

                                                                                                tgtgGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACca                                                                         <  2:106236/80‑1 (MQ=255)

                                                                                                tgtgGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACca                                                                         >  1:106236/1‑80 (MQ=255)

                                                                                                tgtgGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTAAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCAcc              >  1:669309/1‑139 (MQ=255)

                                                                                                  tgGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAg            >  1:705333/1‑139 (MQ=255)

                                                                                                       cTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATg       <  2:216229/139‑1 (MQ=255)

                                                                                                       cTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTAAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATg       <  2:669309/139‑1 (MQ=255)

                                                                                                          cgcgGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATGACg    <  2:705333/139‑1 (MQ=255)

                                                                                                            cgGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATGACGCa  <  1:89259/139‑1 (MQ=255)

TCGGTTTACTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTGAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATGACGCA  >  NC_000913/3055948‑3056194

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A