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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,234,629	A→G	I30T (ATC→ACC)	nhaB ←	sodium:proton antiporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,234,629	0	A	G	100.0%	101.2 / NA	28	I30T (ATC→ACC)	nhaB	sodium:proton antiporter
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (13/15); total (13/15)

ATGCCGATGAATACCGCTTCGATAGCCAACAGACCACCGGGGAGCAGCGGGTAGCATTTCAGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGATTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCA  >  NC_000913/1234482‑1234770

aTGCCGATGAATACCGCTTCGATAGCCAACAGACCACCGGGGAGCAGCGGGTAGCATTTCAGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGtt                                                                                                                                             >  2:225858/1‑150 (MQ=255)

                cTTCGATAGCCAACAGACCACCGGGGAGCAGCGGGTAGCATTTCAGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGc                                                                                                                            >  2:590269/1‑151 (MQ=255)

                                accaccGGGGAGCAGCGGGTAGCATTTCAGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTct                                                                                                            <  1:625846/151‑2 (MQ=255)

                                             agcGGGTAGCATTTCAGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGccc                                                                                                <  1:290516/150‑1 (MQ=255)

                                             agcGGGTAGCATTTCAGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGccc                                                                                                >  2:433329/1‑150 (MQ=255)

                                                       aTTTCAGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTgcg                                                                                     >  2:166375/1‑151 (MQ=255)

                                                            aGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCAt                                                                                 >  2:482157/1‑150 (MQ=255)

                                                            aGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATa                                                                                <  2:219243/151‑1 (MQ=255)

                                                            aGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGATTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCAt                                                                                 >  2:447150/1‑150 (MQ=255)

                                                              ggCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAgc                                                                              <  1:225858/151‑1 (MQ=255)

                                                                ccATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAgcgc                                                                            <  1:507670/151‑1 (MQ=255)

                                                                               aaataaatTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTCCCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGAt                                                             <  2:316886/151‑1 (MQ=255)

                                                                                   aaatTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTcc                                                         >  2:105861/1‑151 (MQ=255)

                                                                                    aatTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTcc                                                         >  1:669305/1‑150 (MQ=255)

                                                                                            tACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGtt                                                >  1:114324/1‑151 (MQ=255)

                                                                                                      cAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCccttacct                                      <  2:135693/151‑1 (MQ=255)

                                                                                                      cAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCccttacct                                      <  1:547692/151‑1 (MQ=255)

                                                                                                        gCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCccttacctta                                    <  2:629060/151‑1 (MQ=255)

                                                                                                             cgacgaAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAaat                               >  2:125651/1‑151 (MQ=255)

                                                                                                                cgaAAGGGCTGATGAGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAaataa                             <  2:554362/150‑1 (MQ=255)

                                                                                                                             gaGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGttttt               <  1:101053/151‑1 (MQ=255)

                                                                                                                             gaGGAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGtttt                <  1:645276/150‑1 (MQ=255)

                                                                                                                                gAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATg            >  2:19562/1‑151 (MQ=255)

                                                                                                                                gAAAATTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATg            <  2:369976/151‑1 (MQ=255)

                                                                                                                                 aaaaTTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGt           >  2:626887/1‑151 (MQ=255)

                                                                                                                                    aTTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGttt         >  1:154668/1‑150 (MQ=255)

                                                                                                                                    aTTAACGGGTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGTTTGTATGTTTa        <  1:363755/151‑1 (MQ=255)

                                                                                                                                          gggTTTACGGTTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCa  <  1:613060/151‑1 (MQ=255)

ATGCCGATGAATACCGCTTCGATAGCCAACAGACCACCGGGGAGCAGCGGGTAGCATTTCAGGGCCATCGCCAGAGTGAAAATAAATTCCGCTACCAGCAACCAGCCCGCGACGAAAGGGCTGATGAGGAAAATTAACGGGTTTACGATTAAGAAAATGATGAGGGCGAGTTTGTACCAGTCGGGGGACTGGCCCAAAAAATTGCGCCATAGCGCGCGGCCCCAGGAGATCTCCATGATGGTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCA  >  NC_000913/1234482‑1234770

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A