genome.fa.s8086.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008086.1 Hibiscus syriacus cultivar Beakdansim tig00110596_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  756749

Tables:   1   2   3   

This is table  3  of  3  ( 345 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529526--529577	26	2.0	25	92	3	86	15	9	15	59	1.60
536672--536716	19	2.4	19	88	0	63	31	8	2	57	1.41
536796--536842	24	2.0	24	91	0	76	34	25	17	23	1.96
536847--536919	24	3.0	24	86	7	112	26	23	27	23	2.00
537694--537735	20	2.1	20	86	0	57	28	23	14	33	1.94
538611--538679	23	3.0	23	84	0	84	28	26	24	20	1.99
543740--543794	23	2.4	23	84	0	65	30	23	23	21	1.99
543756--543808	23	2.3	23	80	0	61	28	24	26	20	1.99
546593--546680	45	2.0	45	93	0	149	27	26	18	28	1.98
546782--546836	21	2.7	21	88	2	85	25	29	25	20	1.99
546782--546832	20	2.5	20	90	3	75	25	27	25	21	1.99
548939--548999	23	2.8	21	74	16	54	21	6	4	67	1.33
548953--548998	24	2.0	23	83	12	58	19	6	4	69	1.28
549012--549141	44	3.0	41	76	15	122	31	2	0	65	1.11
549046--549150	32	3.3	31	79	16	108	27	1	0	69	1.05
548989--549131	38	3.8	39	74	20	133	31	2	1	65	1.13
549290--549319	15	2.0	15	100	0	60	20	20	0	60	1.37
550386--550423	19	2.0	20	89	5	60	7	23	0	68	1.16
551449--551493	23	2.0	23	86	0	63	26	26	26	20	1.99
551469--551775	149	2.1	149	100	0	614	35	20	16	27	1.94
551863--551923	30	2.3	26	77	22	72	32	21	6	39	1.79
552286--552437	67	2.3	67	90	1	232	17	26	28	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558500--558544	23	2.0	23	86	0	63	26	26	26	20	1.99
558520--558826	149	2.1	149	100	0	614	35	20	16	27	1.94
558914--558974	30	2.3	26	77	22	72	32	21	6	39	1.79
559337--559488	67	2.3	67	90	1	232	17	26	28	27	1.98
561170--561208	8	5.0	8	84	6	53	10	17	12	58	1.61
562393--562442	9	5.3	9	87	2	64	86	2	10	2	0.75
562393--562442	10	5.2	10	85	4	68	86	2	10	2	0.75
563047--563090	22	2.0	22	91	8	72	38	22	11	27	1.88
564055--564178	36	3.4	36	82	6	160	25	20	13	40	1.89
564154--564310	68	2.4	68	84	5	205	31	22	8	36	1.85
564954--565677	105	7.0	105	92	1	1131	33	26	16	22	1.95
564954--565677	207	3.5	207	89	2	1103	33	26	16	22	1.95
566742--566802	23	2.8	21	74	16	54	21	6	4	67	1.33
566756--566801	24	2.0	23	83	12	58	19	6	4	69	1.28
566798--566926	41	3.4	36	80	15	129	29	2	1	66	1.13
566846--566940	30	3.3	28	80	11	86	26	2	1	70	1.05
566909--566982	21	3.7	20	74	13	55	16	5	1	77	1.03
566866--566984	29	4.1	27	73	18	73	20	5	0	73	1.06
567071--567100	15	2.0	15	100	0	60	20	20	0	60	1.37
571641--571669	2	14.5	2	100	0	58	0	0	48	51	1.00
601264--601314	16	3.2	16	80	0	66	35	15	19	29	1.93
602772--602894	31	3.9	32	78	9	119	30	18	21	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604725--604849	23	5.3	23	71	10	101	33	22	19	24	1.97
604725--604849	47	2.7	47	91	1	189	33	22	19	24	1.97
604860--605176	103	3.1	103	96	0	580	36	24	12	26	1.91
605940--605983	22	2.0	22	81	0	52	20	25	25	29	1.99
610660--610784	23	5.3	23	76	2	124	31	23	21	24	1.98
610665--610784	47	2.6	47	94	1	206	30	23	22	23	1.99
610791--611111	103	3.1	103	95	0	570	36	23	12	26	1.91
615006--615101	31	3.1	31	78	0	102	34	10	21	33	1.88
615092--615166	31	2.4	32	78	13	84	46	13	16	24	1.82
619139--619176	19	2.2	19	86	13	55	47	5	2	44	1.39
622300--622425	59	2.1	59	81	10	141	34	14	14	37	1.86
623553--623628	25	3.0	26	81	9	68	46	1	10	42	1.46
623562--623628	25	2.6	25	83	6	73	49	1	10	38	1.46
630810--630836	14	1.9	14	100	0	54	85	0	14	0	0.61
632565--632616	20	2.6	20	96	0	95	48	23	19	9	1.78
634604--634636	17	1.9	17	100	0	66	18	12	9	60	1.57
638752--638826	36	2.1	36	92	0	123	36	12	14	37	1.83
640361--640422	28	2.1	30	82	11	76	38	24	14	22	1.91
641342--641426	30	2.9	29	88	10	129	43	9	14	32	1.77
646035--646109	29	2.6	29	91	0	123	44	10	13	32	1.78
650740--650771	15	2.1	16	94	5	57	0	65	0	34	0.93
650922--651877	471	2.0	474	89	4	1467	30	15	32	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653806--653854	14	3.4	14	73	15	55	65	6	0	28	1.16
659874--659928	25	2.1	25	80	12	58	38	18	3	40	1.68
661804--662022	109	2.0	109	99	0	429	34	15	8	42	1.76
664110--664146	3	12.3	3	100	0	74	67	0	0	32	0.91
669027--669079	16	3.2	16	79	10	61	28	28	7	35	1.84
678532--678559	6	4.7	6	100	0	56	14	32	17	35	1.90
680367--680395	15	1.9	15	100	0	58	20	13	17	48	1.81
688115--688164	21	2.4	22	80	12	61	32	2	8	58	1.39
691674--691729	20	2.8	20	88	2	76	50	8	16	25	1.74
696379--696431	25	2.1	25	89	0	79	50	9	5	33	1.58
696384--696437	25	2.3	22	82	14	72	55	9	7	27	1.58
697537--697609	18	3.9	18	77	7	83	30	30	19	20	1.97
697806--697863	24	2.5	21	75	25	55	32	22	5	39	1.76
698350--698401	19	2.7	19	90	0	77	23	30	15	30	1.95
699503--699756	65	3.9	65	90	1	384	30	13	23	32	1.93
699919--700124	65	3.2	65	88	1	297	31	19	14	34	1.92
706425--706449	2	12.5	2	100	0	50	48	0	0	52	1.00
715996--716071	24	3.2	24	94	3	127	47	2	6	43	1.43
723000--723051	23	2.4	22	83	6	70	61	17	1	19	1.44
723000--723052	22	2.3	23	83	3	72	62	16	1	18	1.42
724837--724892	28	2.0	28	86	3	78	17	41	30	10	1.84
725056--725105	16	3.0	17	88	2	57	34	0	4	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
725036--725108	38	1.9	37	81	10	85	31	1	2	64	1.16
725076--725111	16	2.2	16	100	0	72	27	0	0	72	0.85
726845--726902	29	2.0	29	89	0	89	15	43	17	24	1.87
727206--727255	13	4.0	12	82	5	64	16	0	14	70	1.18
729567--729595	13	2.2	13	100	0	58	31	0	55	13	1.39
730274--730398	41	3.0	41	96	0	223	20	19	24	36	1.95
730299--730371	20	3.6	20	74	3	74	13	21	24	39	1.90
730278--730392	21	5.6	21	69	4	99	20	18	26	35	1.95
730425--730496	22	3.4	22	71	11	69	37	23	19	19	1.94
730411--730516	41	2.6	41	89	4	151	41	20	19	17	1.90
730485--730548	21	3.1	21	72	2	67	39	25	17	18	1.92
738098--738142	21	2.1	21	87	0	63	31	28	24	15	1.96
739816--739881	22	3.0	22	93	4	107	19	27	27	25	1.99
744667--744711	23	2.0	23	91	4	74	20	26	28	24	1.99
744674--744719	23	2.0	23	86	0	65	19	23	30	26	1.98
749953--750027	17	4.3	17	75	12	80	10	17	8	64	1.49
749940--750030	36	2.5	36	89	5	139	10	15	8	64	1.48

Tables:   1   2   3

The End!