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	4,188,413	C→T	P1022S (CCG→TCG)	rpoC →	RNA polymerase, beta prime subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,188,413	0	C	T	100.0%	119.6 / NA	31	P1022S (CCG→TCG)	rpoC	RNA polymerase, beta prime subunit
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/10); total (21/10)

ACTGGTTATCACTTCCCGTAATACTGAACTGAAACTGATCGACGAATTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACCCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTCCGCAGAACGTACCGC  >  NC_000913/4188265‑4188555

aCTGGTTATCACTTCCCGTAATACTGAACTGAAACTGATCGACGAATTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCg                                                                                                                                              <  2:27334/151‑1 (MQ=255)

aCTGGTTATCACTTCCCGTAATACTGAACTGAAACTGATCGACGAATTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCg                                                                                                                                              >  2:11012/1‑151 (MQ=255)

aCTGGTTATCACTTCCCGTAATACTGAACTGAAACTGATCGACGAATTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCg                                                                                                                                              >  2:588682/1‑151 (MQ=255)

                   aaTACTGAACTGAAACTGATCGACGAATTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATc                                                                                                                            >  1:614410/1‑150 (MQ=255)

                          aactgaaactgaTCGACGAATTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGt                                                                                                                    >  1:577538/1‑151 (MQ=255)

                             tgaaactgaTCGACGAATTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTa                                                                                                                   >  2:315332/1‑149 (MQ=255)

                                            aaTTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCtt                                                                                                  <  2:577543/151‑1 (MQ=255)

                                             aTTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCttt                                                                                                 >  1:57811/1‑151 (MQ=255)

                                                         tAAAGAAAGCTACAAAGTACCTTCCGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATc                                                                                     >  1:542937/1‑151 (MQ=255)

                                                         tAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATc                                                                                     >  1:25283/1‑151 (MQ=255)

                                                                    aCAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGAc                                                                          >  2:70636/1‑151 (MQ=255)

                                                                       aaGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCAt                                                                       <  2:58547/151‑1 (MQ=255)

                                                                         gTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCAtt                                                                      >  2:611235/1‑150 (MQ=255)

                                                                           aCCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACCGACATGATCGACGGCCAGACCATTAcg                                                                   >  1:160828/1‑151 (MQ=255)

                                                                            ccTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTAcgc                                                                  <  1:581047/151‑1 (MQ=255)

                                                                                     gCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGAcc                                                          <  2:124118/150‑1 (MQ=255)

                                                                                     gCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACcg                                                         >  2:620132/1‑151 (MQ=255)

                                                                                        gTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACcgacg                                                      >  2:409432/1‑151 (MQ=255)

                                                                                                gAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGAcc                                              >  2:106141/1‑151 (MQ=255)

                                                                                                 aaaGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCg                                             >  2:331156/1‑151 (MQ=255)

                                                                                                     gCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGgtct                                         >  1:470106/1‑151 (MQ=255)

                                                                                                         aggCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGgtctgtc                                      >  1:413793/2‑150 (MQ=255)

                                                                                                           gCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTc                                   <  1:368172/151‑1 (MQ=255)

                                                                                                                            ggcgAAACCGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGAtt                  <  1:133258/151‑1 (MQ=255)

                                                                                                                                    cGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTCCGCAGaa          <  1:611225/151‑1 (MQ=255)

                                                                                                                                    cGTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTCCGCAGa           >  2:528422/1‑150 (MQ=255)

                                                                                                                                     gTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTcc                >  2:262229/1‑144 (MQ=255)

                                                                                                                                     gTTGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTcc                <  1:262229/144‑1 (MQ=255)

                                                                                                                                      ttGCAAACTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTCCGCAGAACg        >  2:303867/1‑151 (MQ=255)

                                                                                                                                            aCTGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTCCGCAGAACGTACCGc  <  1:100056/151‑1 (MQ=255)

                                                                                                                                              tGGGACTCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTCCGCAGAACGTACCGc  >  1:203740/1‑149 (MQ=255)

ACTGGTTATCACTTCCCGTAATACTGAACTGAAACTGATCGACGAATTCGGTCGTACTAAAGAAAGCTACAAAGTACCTTACGGTGCGGTACTGGCGAAAGGCGATGGCGAACAGGTTGCTGGCGGCGAAACCGTTGCAAACTGGGACCCGCACACCATGCCGGTTATCACCGAAGTAAGCGGTTTTGTACGCTTTACTGACATGATCGACGGCCAGACCATTACGCGTCAGACCGACGAACTGACCGGTCTGTCTTCGCTGGTGGTTCTGGATTCCGCAGAACGTACCGC  >  NC_000913/4188265‑4188555

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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