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 F1 I2 R1	777	59.2	2955938	92.5%	2734242	106.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	NC_000913	4,609,336	(C)_7→10	intergenic (+13/‑78)	yjjG → / → prfC	dUMP phosphatase/peptide chain release factor RF‑3

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4609329	1 (0.020)	37 (0.630) +CCC	27/192	0.8	97.4%	intergenic (+6/‑85)	yjjG/prfC	dUMP phosphatase/peptide chain release factor RF‑3
*	?	NC_000913	4609330 =	1 (0.020)	37 (0.630) +CCC	27/192	0.8	97.4%	intergenic (+7/‑84)	yjjG/prfC	dUMP phosphatase/peptide chain release factor RF‑3

TCGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4609193‑4609329

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTTTTGC  >  NC_000913/4609330‑4609463

|||

TCGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCC                                                                                                                                         >  2:824862/1‑139

                           CCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCG                                                                                                             <  1:824862/139‑1

                                                ATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAG                                                                                        >  1:1015880/1‑139

                                                   gccAGCAACCAGAAGGCATCGCGCCCCCCTGGACCGTTTCTTCGTTGCACGAACGGGAGCAGCCCCTGTTTAAACACTGTTTGCCTCCCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCG                                                                                      <  2:507586/136‑1

                                                         AACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCG                                                                               <  2:1445867/139‑1

                                                           CCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGAT                                                                             >  1:802081/1‑139

                                                                   CATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCCCCCGTTTATGGGTAAAATAACCGCCATTTTTCGTTTTCAACAAACGCGGCGCGATTCCtgtc                                                                      >  1:507586/1‑135

                                                                      CGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTC                                                                  >  1:304066/1‑139

                                                                            CACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAG                                                            >  1:348702/1‑139

                                                                               CTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAA                                                         <  2:1015880/139‑1

                                                                                       TTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATG                                                 >  2:265203/1‑139

                                                                                       TTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCC‑CCCCCCCCCCGTTG                                                                                                                             >  2:189029/1‑63

                                                                                       TTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCC‑CCCCCCCCCCGTTG                                                                                                                             <  1:189029/63‑1

                                                                                        TTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCCCCgttg                                                                                                                              <  2:1164232/62‑5

                                                                                        TTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCCCCgttg                                                                                                                              >  1:1164232/1‑58

                                                                                            TCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTT                                            <  2:348702/139‑1

                                                                                                           GAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCA                             <  1:265203/139‑1

                                                                                                              CAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTA                                   >  1:90121/1‑130

                                                                                                              CAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTA                                   <  2:90121/130‑1

                                                                                                               AGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAG                         <  2:304066/139‑1

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGT                       >  1:771862/1‑139

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGT                       >  1:1178166/1‑139

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGT                       >  2:1043018/1‑139

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACG                                              >  1:226411/1‑116

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACG                                              <  2:226411/116‑1

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCC                                                                          <  2:207221/88‑1

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCC                                                                          >  1:207221/1‑88

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCG                                                                               >  1:55155/1‑83

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCG                                                                               <  2:55155/83‑1

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCC                                                                                                              <  1:168403/52‑1

                                                                                                                 CTCCTGTGTAAACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCC                                                                                                              >  2:168403/1‑52

                                                                                                                           AACACTGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAGTTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAGGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGC             >  1:1186955/1‑139

                                                                                                                               CTGATTGCCTCCCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGC          >  1:1163695/1‑139

                                                                                                                                TGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACG                                              >  2:47977/1‑101

                                                                                                                                TGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACG                                              <  1:835790/101‑1

                                                                                                                                TGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACG                                              >  2:835790/1‑101

                                                                                                                                TGATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACG                                              <  1:47977/101‑1

                                                                                                                                  ATTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTT      >  1:417034/1‑139

                                                                                                                                   TTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTTT     >  2:967625/1‑139

                                                                                                                                   TTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCG                                                                                 <  2:1410422/63‑1

                                                                                                                                   TTGCCT‑CCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCCCGGCG                                                                                 >  1:1410422/1‑63

                                                                                                                                     GCCTCCCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTTTT    <  2:1163695/139‑1

                                                                                                                                       cctCCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTTTTGC  <  2:802081/136‑1

                                                                                                                                         tCCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGA                                                           >  2:1138021/2‑80

                                                                                                                                         tCCCCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGA                                                           <  1:1138021/79‑1

|||

TCGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4609193‑4609329

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTTTTGC  >  NC_000913/4609330‑4609463

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.

GATK/CNVnator alignment

N/A