New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	349791 =	7 (0.400)	5 (0.300)	5/258	1.5	40.6%	noncoding (187/365 nt)	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
	?	NC_000913_3_pae_pgi	349823 =	8 (0.490)					noncoding (219/365 nt)	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences

CGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGC  >  NC_000913_3_pae_pgi/349678‑349957                                                                                                                                                  |                                                                                                                                       cGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACg                                                                                                                                    >  3:11598/1‑150 (MQ=32)                           tGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATa                                                                                                          <  1:165259/150‑1 (MQ=35)                                         gACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTc                                                                                            <  4:11598/150‑1 (MQ=32)                                              aTCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATc                                                                                       <  2:43102/150‑1 (MQ=17)                                                                           atgcgtcttatccgacctacagttcagtgcaccccgtagGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCAc                                                                                                                            >  4:24628‑M1/40‑84 (MQ=255)                                                                           atgcgtcttatccgacctacagttcagtgcaccccgtagGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCAc                                                                                                                            <  3:24628‑M1/45‑1 (MQ=255)                                                                              cGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGAcccg                                                       >  1:95267/1‑150 (MQ=255)                                                                                            ggCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTa                                         <  2:81992/149‑1 (MQ=14)                                                                                                 cGCATCCGGCAGCCGATGCAGGCTGAGCCGCTGACGCGACTTAGCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACgggg                                    <  2:15033/150‑1 (MQ=11)                                                                                                     gtgcaccccgtaggcctgataagtcgcgtcagcggcgcatcaggcCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCAt                                                                                                  >  4:24628‑M2/46‑84 (MQ=255)                                                                                                     gtgcaccccgtaggcctgataagtcgcgtcagcggcgcatcaggcCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCAt                                                                                                  <  3:24628‑M2/39‑1 (MQ=255)                                                                                                                       ataagtcgcgtcagcggcgcatcaggcCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTc                                                                                            >  2:169585‑M2/28‑72 (MQ=255)                                                                                                                       ataagtcgcgtcagcggcgcatcaggcCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTc                                                                                            <  1:169585‑M2/45‑1 (MQ=255)                                                                                                                       ATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCTTAGCGTCGCATCCGACACCCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGAGAACAGACCAGTAGGTCGGAt              <  2:95016‑M1/150‑1 (MQ=255)                                                                                                                       ATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGAt              >  3:49003‑M1/1‑150 (MQ=255)                                                                                                                             cgcTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGCGTGACCTGAACTGTAGGGCGGATGCGACg        >  2:104325/1‑150 (MQ=11)                                                                                                                                   agcggcgcatcaggcCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGc  >  2:195470‑M2/16‑150 (MQ=255)                                                                                                                                                  |                                                                                                                                       CGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGC  >  NC_000913_3_pae_pgi/349678‑349957

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.