genome.fa.s5728.2.7.7.80.10.50.1000.4.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: VEPZ01005728.1 Hibiscus syriacus cultivar Beakdansim tig00013386_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  971753

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 661 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)
556183--556216	16	2.1	16	94	0	59	32	8	26	32	1.87
558041--558129	22	4.0	22	97	1	151	24	28	26	20	1.99
558055--558117	13	5.5	13	68	27	61	25	26	26	20	1.99
559821--559865	21	2.1	21	87	0	63	15	24	28	31	1.96
562999--563087	22	4.0	22	97	1	151	24	28	26	20	1.99
563013--563075	13	5.5	13	68	27	61	25	26	26	20	1.99
564777--564821	21	2.1	21	87	0	63	15	24	28	31	1.96
568436--568531	21	5.2	21	64	31	76	30	5	20	43	1.74
568401--568564	70	2.3	70	86	8	226	31	6	18	42	1.77
568428--568582	35	4.3	36	92	4	244	30	5	20	43	1.73
572322--572359	19	2.0	19	100	0	76	21	10	42	26	1.85
582377--582406	14	2.1	15	93	6	53	70	10	0	20	1.16
585371--585440	19	3.8	18	83	5	95	52	11	10	25	1.68
585367--585441	37	2.0	37	100	0	150	50	10	10	28	1.70
589422--589474	21	2.5	21	93	0	88	54	20	7	16	1.66
601411--601469	23	2.7	23	94	5	104	38	3	11	45	1.58
601481--601515	13	2.8	13	91	4	54	57	0	0	42	0.99
604511--604551	8	5.2	8	82	5	57	34	0	29	36	1.58
604619--605223	126	4.8	126	98	0	1165	21	26	20	31	1.98
605611--605710	33	3.0	34	83	2	139	39	3	4	54	1.35
605611--605710	34	3.0	33	79	7	121	39	3	4	54	1.35
606232--606325	21	4.5	21	92	5	129	20	26	35	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606329--606376	21	2.3	21	85	0	60	22	12	39	25	1.89
608099--608166	14	4.3	15	71	18	50	57	1	0	41	1.08
608858--608890	16	2.1	16	94	0	57	39	9	15	36	1.79
609186--609224	16	2.4	16	83	8	53	64	5	2	28	1.28
612443--612528	30	2.8	31	87	3	120	33	11	25	29	1.91
613454--613496	18	2.4	18	77	14	52	51	2	0	46	1.13
614631--614702	5	14.4	5	82	0	90	0	23	58	18	1.39
616260--616404	74	2.0	74	98	0	281	31	12	20	35	1.90
616336--616532	101	1.9	102	87	3	290	38	12	20	28	1.89
616708--616906	110	1.8	110	89	0	317	22	18	23	35	1.96
617995--618029	17	2.1	16	94	5	61	57	8	5	28	1.52
619302--619417	21	5.6	21	69	10	60	32	27	18	21	1.96
619405--619597	20	9.6	20	84	5	246	34	27	19	18	1.95
619977--620047	33	2.2	33	92	0	115	12	22	16	47	1.80
620127--620233	21	5.6	20	73	17	102	46	18	21	13	1.83
620188--620244	14	3.7	14	75	20	60	43	22	24	8	1.81
620180--620260	33	2.5	33	91	0	135	49	22	19	8	1.75
620256--620320	19	3.7	19	76	19	77	12	23	20	44	1.84
620280--620334	14	3.6	14	73	21	56	9	23	21	45	1.80
620261--620342	33	2.5	33	97	0	155	10	23	18	47	1.80
620319--620383	21	3.1	21	82	4	96	10	26	15	47	1.78
622068--622383	93	3.4	93	99	0	614	22	13	18	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622499--622555	14	3.7	14	72	20	51	43	24	22	8	1.81
622513--622604	19	5.4	18	71	24	65	47	27	17	7	1.74
622481--622604	33	3.7	33	90	1	176	46	26	17	8	1.77
622530--622588	14	3.9	14	76	20	64	49	27	16	6	1.71
622600--622739	19	7.6	19	76	8	137	12	18	22	45	1.83
624661--624696	14	2.6	14	95	0	63	33	0	22	44	1.53
624803--624901	20	5.4	19	82	12	127	46	17	22	14	1.83
624803--624919	54	2.2	53	95	3	209	44	17	23	13	1.85
624910--625190	19	15.7	19	80	16	350	14	22	17	45	1.85
624934--625065	33	3.8	33	87	10	192	14	21	17	46	1.84
624910--625162	72	3.5	71	89	8	363	15	22	16	45	1.85
624910--625190	53	5.2	55	86	10	292	14	22	17	45	1.85
625058--625204	33	4.2	33	81	13	188	13	21	18	46	1.83
624987--625204	105	2.1	103	88	10	318	14	21	17	46	1.84
627486--627510	12	2.1	12	100	0	50	0	28	0	72	0.86
627698--627752	24	2.3	24	83	0	65	38	20	14	27	1.91
628424--628652	20	11.4	20	85	1	226	19	17	25	37	1.94
628424--628633	60	3.5	60	84	2	253	20	17	25	36	1.94
629523--629562	16	2.4	16	87	8	53	50	5	2	42	1.37
630376--630462	19	4.6	19	97	0	156	24	25	5	44	1.75
632290--632348	20	2.9	19	76	16	64	28	20	25	25	1.99
633177--633242	23	2.9	23	83	0	78	21	25	24	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637814--637958	64	2.3	64	79	5	168	33	23	20	22	1.97
637967--638019	20	2.7	20	100	0	106	24	16	24	33	1.96
641516--641578	20	2.9	21	79	9	65	15	25	34	23	1.95
645384--645423	21	1.9	21	85	10	55	35	10	2	52	1.48
648426--648493	23	3.0	23	84	0	82	22	27	23	26	1.99
657969--658023	28	2.0	28	89	7	85	58	1	3	36	1.26
658032--658190	25	6.5	24	70	21	82	53	0	6	38	1.33
658076--658132	27	2.2	25	87	6	78	56	0	8	35	1.31
658040--658157	46	2.6	47	80	8	134	53	0	9	36	1.39
658113--658162	26	2.0	25	84	11	66	58	2	8	32	1.39
658762--658797	17	2.1	17	90	10	56	36	0	2	61	1.11
661550--661626	3	26.3	3	84	5	104	59	0	0	40	0.97
661780--662570	76	10.4	76	97	0	1447	35	21	21	21	1.96
663637--663755	54	2.3	52	88	4	168	23	21	15	39	1.92
665786--666009	116	1.9	116	89	0	349	30	21	15	32	1.94
674711--674784	3	25.3	3	83	5	98	59	0	0	40	0.97
674700--674788	12	7.0	13	79	17	98	57	0	0	42	0.98
681517--681615	45	2.1	48	85	5	132	28	10	20	41	1.84
687649--687673	2	12.5	2	100	0	50	48	0	0	52	1.00
691223--691311	16	5.4	16	75	11	81	70	0	21	7	1.12
691266--691315	15	3.3	15	86	8	66	78	0	14	8	0.97
692641--693108	55	8.6	55	83	4	511	29	15	24	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
692641--693108	110	4.3	110	83	5	574	29	15	24	30	1.95
692641--693074	161	2.7	161	85	3	548	29	15	24	30	1.95
696520--696555	18	2.0	18	89	10	56	19	19	33	27	1.96
696496--696599	46	2.3	46	87	0	154	20	16	29	33	1.94
700585--700679	46	2.1	46	93	0	163	22	18	25	33	1.97
701371--701412	16	2.6	16	96	3	75	42	4	23	28	1.74
702071--702139	32	2.2	32	89	0	102	39	1	10	49	1.46
702403--702468	22	3.2	21	70	20	59	43	0	3	53	1.16
702413--702473	18	3.2	17	72	20	50	42	0	3	54	1.17
713860--713906	18	2.7	18	93	3	78	34	8	29	27	1.87
714211--714816	261	2.4	248	85	9	789	41	18	11	27	1.85
714916--714948	16	2.1	16	100	0	66	57	24	12	6	1.57
715010--715064	16	3.4	16	94	0	101	56	21	12	9	1.64
716101--716156	14	4.3	14	82	17	84	51	26	14	7	1.67
716094--716141	10	4.4	10	78	19	51	54	25	12	8	1.65
716094--716155	24	2.6	24	97	0	115	53	25	12	8	1.66
719939--719980	3	14.3	3	90	5	68	30	2	0	66	1.04
725334--725367	2	17.0	2	87	0	50	50	0	2	47	1.16
726274--726319	2	23.0	2	86	0	65	52	4	0	43	1.21
726819--726905	39	2.2	40	78	17	92	51	1	5	41	1.33
727021--727047	3	9.0	3	100	0	54	33	0	0	66	0.92
727222--727332	20	5.5	20	95	1	195	46	15	18	18	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
727681--727739	21	2.8	20	80	7	73	22	16	15	45	1.84
727723--727809	40	2.2	40	95	0	156	18	14	26	40	1.89
727723--727809	20	4.3	20	86	2	122	18	14	26	40	1.89
727723--727829	40	2.7	40	85	8	130	21	15	24	38	1.92
727803--727847	20	2.2	20	84	0	63	24	20	22	33	1.97
730839--730868	4	7.2	4	92	7	51	73	3	0	23	0.98
733632--733672	21	2.0	21	95	0	73	14	29	14	41	1.86
743055--743131	37	2.1	37	85	9	104	46	1	3	48	1.28
746240--746302	30	2.1	30	96	0	117	22	25	9	42	1.83
753010--753116	12	9.2	12	69	25	70	74	1	3	19	1.06

Tables:   1   2   3   4   5   6