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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,842,573	C→T	157 (TAG→TAA)	hycI ←	protease involved in processing C‑terminal end of HycE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,842,573	0	C	T	100.0%	59.8 / NA	20	157 (TAG→TAA)	hycI	protease involved in processing C‑terminal end of HycE
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (11/9); total (11/9)

TTATCCGGCCTACATGTCGCACGAACCATGAAGGCCCGATAAGCGCAGCGCATCGGGCAATTTAGCATTTGGCATCAGAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAACTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCTGGGTCATCGGGTAGTAAAAGCCGACGATATCCGGCTGAA  >  NC_000913/2842444‑2842706

ttATCCGGCCTACATGTCGCACGAACCATGAAGGCCCGATAAGCGCAGCGCATCGGGCAATTTAGCATTTGGCATCATAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACtcttct                                                                                                                              >  1:772546/1‑139 (MQ=255)

                     cGAACCATGAAGGCCCGATAAGCGCAGCGCATCGGGCAATTTAGCATTTGGCATCAGAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAg                                                                                                         <  2:772546/139‑1 (MQ=255)

                       aaCCATGAAGGCCCGATAAGCGCAGCGCATCGGGCAATTTAGCATTTGGCATCAGAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAgcc                                                                                                       >  2:903908/1‑139 (MQ=255)

                                      aTAAGCGCAGCGCATCGGGCAATTTAGCATTTGGCATCAGAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCa                                                                                        <  1:903908/139‑1 (MQ=255)

                                                  caTCGGGCAATTTAGCATTTGGCATCAGAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCg                                                                            <  1:314731/139‑1 (MQ=255)

                                                                      ggCATCAGAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCg                                                        >  1:478388/1‑139 (MQ=255)

                                                                      ggCATCAGAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCg                                                        >  2:124084/1‑139 (MQ=255)

                                                                              agCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTa                                                >  2:385140/1‑139 (MQ=255)

                                                                              agCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCCCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTa                                                >  2:758878/1‑139 (MQ=255)

                                                                                    ttCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGc                                          <  2:44654/139‑1 (MQ=255)

                                                                                          ccATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCTGGGTc                                    <  1:124084/139‑1 (MQ=255)

                                                                                               aaGAACATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCCCCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCTGGGTCATCgg                               <  1:385140/139‑1 (MQ=255)

                                                                                                   aCATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATttccttcc                                                                                          >  2:724007/1‑76 (MQ=255)

                                                                                                   aCATCCCTGTCCTGATTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATttccttcc                                                                                          <  1:724007/76‑1 (MQ=255)

                                                                                                            tCCTGATTCATTAATGAAAAATTACTCTTCTTCCTCCGCTAACTGCTCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTGCCGCATCTTTAATCTGCGGGGTAATCGGGTAGTAAAAGCcg                  >  1:1081896/1‑139 (MQ=255)

                                                                                                                 aTTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCt                                         >  1:879363/1‑111 (MQ=255)

                                                                                                                 aTTCCTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCt                                         <  2:879363/111‑1 (MQ=255)

                                                                                                                    ccTTAATGAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCTGGGTCATCGGGTAGTAAAAGCCGACGATATc          <  1:758878/139‑1 (MQ=255)

                                                                                                                           gAAAAATTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCTGGGTCATCGGGTAGTAAAAGCCGACGATATCCGGCTGa   >  2:1177933/1‑139 (MQ=255)

                                                                                                                            aaaaaTTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCTGGGTCATCGGGTAGTAAAAGCCGACGATATCCGGCTGaa  >  2:603482/1‑139 (MQ=255)

TTATCCGGCCTACATGTCGCACGAACCATGAAGGCCCGATAAGCGCAGCGCATCGGGCAATTTAGCATTTGGCATCAGAGCTGGTTCACCCCATCAAGAACATCCCTGTCCTGATTCCTTAATGAAAAACTACTCTTCTTCCACCGCTAACTGCGCGAAGCCGCCATTTCCTTCCCAGCCTTCCAGTCGTTGATAAACGGTTTCTACCGCATCTTTAATCGGCTGGGTCATCGGGTAGTAAAAGCCGACGATATCCGGCTGAA  >  NC_000913/2842444‑2842706

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A