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 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	NC_000913	3,432,994	(C)_6→9	coding (567/1125 nt)	smf ←	DNA recombination‑mediator A family protein

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3432988	0 (0.000)	53 (1.140) +CCC	40/198	0.1	100%	coding (573/1125 nt)	smf	DNA recombination‑mediator A family protein
*	?	NC_000913	3432989 =	0 (0.000)	53 (1.140) +CCC	40/198	0.1	100%	coding (572/1125 nt)	smf	DNA recombination‑mediator A family protein

CCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3432858‑3432988

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCT  >  NC_000913/3432989‑3433096

                                                                                                                                   ||||||

CCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCC                                                                                                         <  2:549711/139‑1

    CGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGT                                                                                                     >  2:101891/1‑139

     GAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTT                                                                                                    <  1:101891/139‑1

       ACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCA                                                                                                  >  1:286992/1‑139

                      CGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAATGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCC                                                                                                          <  2:786011/116‑1

                      CGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCC                                                                                                          >  1:786011/1‑116

                        CTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCA                                                                                  >  1:1110530/1‑139

                              CCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGC                                                                           >  1:201769/1‑139

                                   AGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGA                                                                       <  2:1110530/139‑1

                                       CACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCG                                                                  <  1:985134/139‑1

                                            TTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGAT                                                             <  2:562255/139‑1

                                            TTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGAT                                                             >  2:551801/1‑139

                                            TTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGAT                                                             <  2:292744/139‑1

                                            TTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGAT                                                             >  1:878156/1‑139

                                                TTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAT                                                         <  2:207482/139‑1

                                                TTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAT                                                         <  1:864536/139‑1

                                                    ACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTA                                                     >  2:369915/1‑139

                                                    ACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAT                                                         >  2:414751/1‑135

                                                    ACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAT                                                         <  1:414751/135‑1

                                                    ACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGG                                                               >  1:511361/1‑129

                                                    ACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGG                                                               <  2:511361/129‑1

                                                       ACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGGGAGCGCCC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATT                                                   <  1:483199/139‑1

                                                        CTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTA                                                  >  1:532226/1‑139

                                                         TGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAG                                                >  2:687566/1‑139

                                                             AATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCA                                            <  1:369915/139‑1

                                                               TGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CCCTCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCA                                            <  2:649072/139‑1

                                                                GCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTC                                         <  2:878156/139‑1

                                                                   ATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGG                                                                    >  1:467286/1‑109

                                                                   ATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGG                                                                    <  2:467286/109‑1

                                                                   ATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑C                                                                                                              <  2:574403/67‑1

                                                                   ATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑C                                                                                                              >  1:574403/1‑67

                                                                      TCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAAT                                   <  2:201769/139‑1

                                                                          CGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAG                               >  1:7272/1‑139

                                                                                   TTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGA                      <  2:286992/139‑1

                                                                                      TAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCTGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGC                   >  2:723798/1‑139

                                                                                             GGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATT                                                   <  2:220730/100‑1

                                                                                             GGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATT                                                   >  1:220730/1‑100

                                                                                              GGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCC‑‑CCCCCCCTGTTCAAGCAGCCTGGCAGCCAGTCGGGCATGACGGAGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTAC            >  1:592193/1‑139

                                                                                              GGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACC           >  1:663108/1‑139

                                                                                                GTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTG         >  2:626067/1‑139

                                                                                                GTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAG                                                                                     >  2:308538/1‑63

                                                                                                GTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAG                                                                                     <  1:308538/63‑1

                                                                                                 TGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGT        <  1:551801/139‑1

                                                                                                     ACATCGAGGGGCAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTATCTGTAAGG    <  1:723798/139‑1

                                                                                                       ATCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCT  <  1:687566/139‑1

                                                                                                        TCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAT                                                         <  1:906965/83‑1

                                                                                                        TCGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAT                                                         >  2:906965/1‑83

                                                                                                         CGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAT                                                         >  2:205736/1‑82

                                                                                                         CGAGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAT                                                         <  1:205736/82‑1

                                                                                                           AGGGTAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCA                                            <  1:704722/93‑1

                                                                                                           AGGGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGTATGGTATTAAGTCCA                                            >  2:704722/1‑93

                                                                                                             GGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTG         >  1:949798/1‑126

                                                                                                             GGGAAATTCCGAGACGAGAGCG‑CC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTG         <  2:949798/126‑1

                                                                                                                              GAGCGCCC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGA                                                           >  1:212804/1‑60

                                                                                                                              GAGCGCCC‑‑CCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGA                                                           <  2:212804/60‑1

                                                                                                                                   ||||||

CCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3432858‑3432988

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCT  >  NC_000913/3432989‑3433096

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `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