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
A6 F1 I2 R1	67	27.9	1239648	95.3%	1181384	112.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,684,175	T→C	S432P (TCT→CCT)	rstB →	sensory histidine kinase of RstAB two‑component system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,684,175	0	T	C	96.7%	106.1 / ‑2.7	30	S432P (TCT→CCT)	rstB	sensory histidine kinase of RstAB two‑component system
Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (14/15); minor base A (1/0); total (15/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.37e-01

GGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCTCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAGTGGTTAATATTATGGCGCGTTACGATCTCGTAGACCGACTCAACACTACCTTTCG  >  NC_000913/1684049‑1684302

gggctggCAATTGTCCACTCTATAGCACTGGCAATGGGTGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACt                                                                                                                     <  2:76308/139‑1 (MQ=255)

      gCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACgcgc                                                                                                               >  1:454151/1‑139 (MQ=255)

              ccACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGt                                                                                                       <  1:83697/139‑1 (MQ=255)

                 ctctATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCaa                                                                                                    <  1:524836/139‑1 (MQ=255)

                      taGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACGCTACGCGCACGATGGTCAAGTcac                                                                                               >  1:426609/1‑139 (MQ=255)

                            tGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCaa                                                                                                    <  2:269736/128‑1 (MQ=255)

                            tGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCaa                                                                                                    >  1:269736/1‑128 (MQ=255)

                            tGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGAc                                                                                         >  2:203974/1‑139 (MQ=255)

                            tGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGAc                                                                                         >  1:479910/1‑139 (MQ=255)

                             ggCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACt                                                                                        <  2:116641/139‑1 (MQ=255)

                              gCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGt                                                                                                       <  1:102657/123‑1 (MQ=255)

                              gCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGt                                                                                                       >  2:102657/1‑123 (MQ=255)

                              gCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACtg                                                                                       >  1:210911/1‑139 (MQ=255)

                              gCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACtg                                                                                       >  2:444744/1‑139 (MQ=255)

                                             gTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACGCTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGt                                                                        <  2:426609/139‑1 (MQ=255)

                                             gTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGt                                                                        <  2:479910/139‑1 (MQ=255)

                                             gTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGt                                                                        <  2:117878/139‑1 (MQ=255)

                                                            aGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAg                                                         <  2:454151/139‑1 (MQ=255)

                                                             gCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCtat                                                                                 <  1:315806/114‑1 (MQ=255)

                                                             gCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCtat                                                                                 >  2:315806/1‑114 (MQ=255)

                                                              cGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAGCATCCCGCAATTTACccct                                                                                                                               >  1:22748/1‑67 (MQ=255)

                                                              cGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAGCATCCCGCAATTTACccct                                                                                                                               <  2:22748/67‑1 (MQ=255)

                                                                  cTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAGTGGTTa                                                   <  2:345991/139‑1 (MQ=255)

                                                                     ggtggtGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAGTGGTTAata                                                >  1:79646/1‑139 (MQ=255)

                                                                            cccGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAGTGGTTAATATTATGgc                                         >  2:589836/1‑139 (MQ=255)

                                                                             ccGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCACTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAGTGGTTAATATTATGgcg                                        >  2:279729/1‑139 (MQ=255)

                                                                                    tcGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAGTGGTTAATATTATGGCGCGTTACg                                 <  1:203974/139‑1 (MQ=255)

                                                                                              ggCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACtgtg                                                                                     >  1:87125/1‑77 (MQ=255)

                                                                                              ggCCGTTATGGCATAACATCCCGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACtgtg                                                                                     <  2:87125/77‑1 (MQ=255)

                                                                                                                   cGCAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAGTGGTTAATATTATGGCGCGTTACGATCTCGTAGACCGACTCAACACTACCTTTCg  >  1:23797/1‑139 (MQ=255)

                                                                                                                     cAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTAtgttgt                                                                 >  2:337681/1‑74 (MQ=255)

                                                                                                                     cAATTTACCCCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTAtgttgt                                                                 <  1:337681/74‑1 (MQ=255)

GGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGCGAACTGGGTGGTGCCCGCTTCTCGTTTAGCTGGCCGTTATGGCATAACATCCCGCAATTTACCTCTGCCTGACACTACGCGCACGATGGTCAAGTCACCACGACTGTGCTATAAAATAAGTATGTTGTAACTAAAGTGGTTAATATTATGGCGCGTTACGATCTCGTAGACCGACTCAACACTACCTTTCG  >  NC_000913/1684049‑1684302

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A