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
A11 F30 I1 R1	24	51.0	1727166	99.1%	1711621	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,687,211	C→A	P66P (CCG→CCT)	glnB ←	nitrogen regulatory protein PII‑1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,687,211	0	C	A	100.0%	168.8 / NA	48	P66P (CCG→CCT)	glnB	nitrogen regulatory protein PII‑1
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (26/22); total (26/22)

CGCGTCGTCCTCTTCACCGGTACGGATGCGAATGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCCGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGACTTC  >  NC_000913/2687079‑2687345

cgcgTCGTCCTCTTCACCGGTACGGATGCGAATGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGa                                                                                                                                 >  2:23027/1‑140 (MQ=255)

cgcgTCGTCCTCTTCACCGGTACGGATGCGAATGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGCGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGa                                                                                                                                 >  2:432240/1‑140 (MQ=255)

                      cGGATGCGAATGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCgg                                                                                                           >  1:100262/1‑140 (MQ=255)

                      cGGATGCGAATGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCgg                                                                                                           >  2:182981/1‑140 (MQ=255)

                            cGAATGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGaaa                                                                                                     <  1:362050/140‑1 (MQ=255)

                            cGAATGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGaaa                                                                                                     <  1:479180/140‑1 (MQ=255)

                              aaTGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAAt                                                                                                   <  1:423986/140‑1 (MQ=255)

                                tGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATcc                                                                                                 <  2:17396/140‑1 (MQ=255)

                                tGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATcc                                                                                                 <  2:100262/140‑1 (MQ=255)

                                   cccGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATccacc                                                                                              >  1:321745/1‑140 (MQ=255)

                                   cccGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATccacc                                                                                              >  2:740195/1‑140 (MQ=255)

                                        gCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAg                                                                                                        >  1:431626/1‑125 (MQ=255)

                                        gCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAg                                                                                                        <  2:431626/125‑1 (MQ=255)

                                             gTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTccg                                                                                    <  1:23027/140‑1 (MQ=255)

                                             gTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTccg                                                                                    >  1:516336/1‑140 (MQ=255)

                                                 aaGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTccgcgcc                                                                                >  1:684963/1‑140 (MQ=255)

                                                  aGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTccgcgccg                                                                               <  2:266604/140‑1 (MQ=255)

                                                  aGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTccgcgccg                                                                               >  1:230856/1‑140 (MQ=255)

                                                     cGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCgg                                                                            <  2:285256/140‑1 (MQ=255)

                                                           ttttACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGc                                                                      >  1:510377/1‑140 (MQ=255)

                                                                ccGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGt                                                                 <  1:675379/140‑1 (MQ=255)

                                                                ccGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGt                                                                 <  1:509988/140‑1 (MQ=255)

                                                                    cACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATgg                                                             >  1:700119/1‑140 (MQ=255)

                                                                    cACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATgg                                                             >  2:599014/1‑140 (MQ=255)

                                                                    cACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATgg                                                             >  2:694702/1‑140 (MQ=255)

                                                                             tGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTgg                                                    >  1:478150/1‑140 (MQ=255)

                                                                             tGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTgg                                                    >  1:218757/1‑140 (MQ=255)

                                                                                 ggTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGAc                                                <  2:518541/140‑1 (MQ=255)

                                                                                    ttGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCaa                                             <  2:510377/140‑1 (MQ=255)

                                                                                      gcgcCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAg                                           <  1:236924/140‑1 (MQ=255)

                                                                                         ccGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCt                                        >  2:302085/1‑140 (MQ=255)

                                                                                               gAATAATGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACt                                  <  1:344094/140‑1 (MQ=255)

                                                                                                    atGGTATCGACACAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGt                             <  1:694702/140‑1 (MQ=255)

                                                                                                             acacAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCAt                    <  2:480170/140‑1 (MQ=255)

                                                                                                             acacAGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCAt                    >  2:289761/1‑140 (MQ=255)

                                                                                                               acaGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGc                  >  1:15444/1‑140 (MQ=255)

                                                                                                                 aGGTATCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCg                <  2:230856/140‑1 (MQ=255)

                                                                                                                     aTCGACAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTaa            >  2:361089/1‑140 (MQ=255)

                                                                                                                         aCAATGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCC‑TTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCg       >  2:129066/1‑140 (MQ=255)

                                                                                                                            aTGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGAc     <  1:599014/140‑1 (MQ=255)

                                                                                                                             tGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCTCTTCGGTCACCGTCATGCCGGTAATACCGACt    >  1:368442/1‑140 (MQ=255)

                                                                                                                             tGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGACt    >  2:10703/1‑140 (MQ=255)

                                                                                                                             tGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGACt    >  1:699328/1‑140 (MQ=255)

                                                                                                                             tGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGACt    <  1:432240/140‑1 (MQ=255)

                                                                                                                             tGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGACt    >  1:276762/1‑140 (MQ=255)

                                                                                                                             tGTCGTCAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGACt    >  1:206023/1‑140 (MQ=255)

                                                                                                                               tcgtcAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCTCTTCGGTCACCGTCATGCCGGTAATACCGACTTc  <  2:368442/140‑1 (MQ=255)

                                                                                                                               tcgtcAGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGACTTc  <  2:478150/140‑1 (MQ=255)

CGCGTCGTCCTCTTCACCGGTACGGATGCGAATGACCCGTGCCACGTCAAAGACGAAGATTTTACCGTCACCGATTTTGCCGGTTTGCGCCGTGCGAATAATGGTATCGACACAGGTATCGACAATGTCGTCCGGTACGACAATCTCAATTTTCACTTTCGGCAGAAAATCCACCATATACTCCGCGCCGCGGTACAGCTCGGTATGGCCTTTCTGGCGACCAAAGCCTTTCACTTCGGTCACCGTCATGCCGGTAATACCGACTTC  >  NC_000913/2687079‑2687345

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A