New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2304676	7 (0.450)	4 (0.270)	4/234	1.4	40.8%	noncoding (260/655 nt)	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
	?	NC_000913_3_pae_tpiA	= 2304872	5 (0.340)					noncoding (456/655 nt)	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences

CCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCT  >  NC_000913_3_pae_tpiA/2304749‑2304946                                                                                                                            |                                                                           ccACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGgtcg                                                                        <  1:39648‑M2/128‑5 (MQ=255) ccACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGgtcg                                                                        >  2:39648‑M2/1‑124 (MQ=255)     cccGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGgtcggatgcggcgtaaccgccttatccgac                                              <  4:65444‑M2/150‑31 (MQ=255)             ttGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACg                                      >  4:24056/1‑150 (MQ=40)                     ggCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCACCACCGATGCGGAATGCTATGCCACCTATGGCGGATAAGGCGCACACGACGCATCCCACATCTCACGCCCAAggc                              >  2:160804/1‑148 (MQ=2)                      gCGGTTACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCCCCCCGTAGgccggatgcggcgtacccgccttatccgacctacggggtggagcact                             >  3:65444‑M2/1‑103 (MQ=255)                           tACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCAGGCGCGTCTTATCAGCCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGc                        <  1:104995/150‑1 (MQ=17)                                        aCATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCt           <  3:24056/150‑1 (MQ=32)                                                 gTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCt  >  4:43937/1‑150 (MQ=31)                                                                                              cTACACCGCTGTGAAGTGCTCCACCCCGTAGgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtag               >  1:50682‑M2/1‑31 (MQ=255)                                                                                              cTACACCGCTGTGAAGTGCTCCACCCCGTAGgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtag               <  2:50682‑M2/92‑62 (MQ=255)                                                                                                                            |                                                                           CCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCT  >  NC_000913_3_pae_tpiA/2304749‑2304946

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.