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
A1 F30 I1 R1	18	47.5	1605326	99.2%	1592483	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,510,708	C→A	R90L (CGA→CTA)	yhfX ←	putative PLP‑binding protein YhfX

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,510,708	0	C	A	100.0%	65.1 / NA	21	R90L (CGA→CTA)	yhfX	putative PLP‑binding protein YhfX
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (17/4); total (17/4)

AACTTCCCGCGCTTTGTCGAGAGTAAACACGGTGATGACGTCGGTGCCCTGTTCAACGGCGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTCGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAGATACAGTTCAATGCCGTAAAGCCGCGCCGTCTCAATCAG  >  NC_000913/3510572‑3510844

aaCTTCCCGCGCTTTGTCGAGAGTAAACACGGTGATGACGTCGGTGCCCTGTTCAACGGCGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTagcg                                                                                                                                       <  2:597611/140‑1 (MQ=255)

   ttCCCGCGCTTTGTCGAGAGTAAACACGGTGATGACGTCGGTGCCCTGTTCAACGGCGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCct                                                                                                                                    <  1:721913/140‑1 (MQ=255)

                     agTAAACACGGTGATGACGTCGGTGCCCTGTTCAACGGCGTCAGCACCGTGATGAAAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCCCCGCca                                                                                                                  <  2:613018/140‑1 (MQ=255)

                          acacGGTGATGACGTCGGTGCCCTGTTCAACGGCGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATg                                                                                                             <  1:539380/140‑1 (MQ=255)

                               gTGATGACGTCGGTGCCCTGTTCAACGGCGTCAGCAACCTGATGACAAGGGCTTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCt                                                                                                        >  2:151276/1‑140 (MQ=255)

                                                   ttCAACGGCGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAAtt                                                                                    >  2:176820/1‑140 (MQ=255)

                                                      aaCGGCGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAAttttt                                                                                 >  2:565309/1‑140 (MQ=255)

                                                        cGGCGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTcc                                                                               >  2:794569/1‑140 (MQ=255)

                                                           cGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCgcc                                                                            >  1:484751/1‑140 (MQ=255)

                                                             tCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCgccag                                                                          >  1:208842/1‑140 (MQ=255)

                                                             tCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCgccag                                                                          >  2:62635/1‑140 (MQ=255)

                                                             tCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCgccag                                                                          >  1:299096/1‑140 (MQ=255)

                                                             tCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCgccag                                                                          >  1:51217/1‑140 (MQ=255)

                                                                gCACCCTGATGACAGGGGATTTGTCCCAGATGCCCCTGATGCCCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTTTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCgccagcca                                                                       <  2:208842/140‑1 (MQ=255)

                                                                     cTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGAt                                                                  <  1:565309/140‑1 (MQ=255)

                                                                        atgaCAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTAc                                                               >  1:382557/1‑140 (MQ=255)

                                                                         tgaCAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACg                                                              >  2:507091/1‑140 (MQ=255)

                                                                               gggATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCaaa                                                        >  1:21253/1‑140 (MQ=255)

                                                                                      gTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTg                                                 <  1:507091/140‑1 (MQ=255)

                                                                                       tcccAGATGCCCCTGATGCCCCACAGGCAACCCAGCGCGGCGCATGACTAGCGCCTTTTTGTAACCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTgg                                                <  2:51217/138‑1 (MQ=255)

                                                                                       tccaaGATCCCCCTGAGGCCCCACAGGAAACCCAGCGCGGCGCATGACTAGCGCCTTTTTGTAACCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTgg                                                <  2:382557/136‑1 (MQ=255)

                                                                                       tACCAGTTGCCCGTGATGCGCCAGGGGCAACCCGGCGCGGCGCATGATTAGCGCCTTTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTgg                                                <  2:299096/140‑1 (MQ=255)

                                                                                         ccAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGtc                                              >  1:173703/1‑140 (MQ=255)

                                                                                         ccAGAGCCCCTTGATGCGCCACAGGAAACCCAGCGCGGCGCATGACTAGCGCCTTTTTTTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGtc                                              <  2:173703/140‑1 (MQ=255)

                                                                                            gATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGtcatc                                           >  1:355650/1‑140 (MQ=255)

                                                                                             aTGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGtcatca                                          >  2:238057/1‑140 (MQ=255)

                                                                                              tGCCCCTGATGCCCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTTTTTGTAACCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAg                                         <  2:486705/140‑1 (MQ=255)

                                                                                                 cccTGATGCGCCACGGAAAAACCCGGGCGGCGCATGCCGGCGGCCTCTTTTTAACCGACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAGATa                                      <  2:514329/140‑1 (MQ=255)

                                                                                                 cccTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGtc                                              >  1:715590/1‑132 (MQ=255)

                                                                                                 cccTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGtc                                              <  2:715590/132‑1 (MQ=255)

                                                                                                 cccTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAGATa                                      <  2:484751/140‑1 (MQ=255)

                                                                                                               aGGCAAACCAGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAGATACAGTTCAATGCCGt                        >  2:334293/1‑140 (MQ=255)

                                                                                                                        aGCGCGGCGCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAGATACAGTTCAATGCCGTAAAGCcgcg               <  1:676164/140‑1 (MQ=255)

                                                                                                                           gcggcgCATGACTAGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAGATACAGTTCAATGCCGTAAAGCCGCGCCg            <  1:334293/140‑1 (MQ=255)

                                                                                                                                     aCTAGCGCCTTTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTGCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAGATACAGTTCAATGCCGTAAAGCCGCGCCGTCTCAATCAg  <  1:62635/140‑1 (MQ=255)

AACTTCCCGCGCTTTGTCGAGAGTAAACACGGTGATGACGTCGGTGCCCTGTTCAACGGCGTCAGCAACCTGATGACAAGGGATTTGTACCAGATGCCCCTGATGCGCCACAGGCAAACCAGCGCGGCGCATGACTCGCGCCTCTTTGTAATCCACCGCCACAATGCCGCTGTAGCCTAATGCCAGCAATTTTTCCGCCAGCCACGGATTACGACCAAACTGCTTGGTCATCAGATACAGTTCAATGCCGTAAAGCCGCGCCGTCTCAATCAG  >  NC_000913/3510572‑3510844

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A