genome.fa.s8703.2.7.7.80.10.50.1000.3.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: VEPZ01008703.1 Hibiscus syriacus cultivar Beakdansim tig00111742_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1275178

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 639 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)
563727--563797	24	3.0	23	81	8	79	43	18	12	25	1.85
568591--568653	21	3.3	19	74	17	67	50	3	3	42	1.34
568650--568697	13	3.3	15	82	14	64	37	8	0	54	1.31
568650--568685	14	2.6	14	86	13	56	36	8	0	55	1.30
569215--569276	2	31.0	2	78	12	65	43	3	1	51	1.27
570350--571267	136	6.7	134	80	7	740	26	20	17	35	1.94
570764--571267	278	1.8	278	87	0	749	25	19	18	36	1.94
571827--571864	18	2.1	18	90	0	58	18	18	26	36	1.94
572069--572233	54	3.0	55	76	3	181	41	13	8	35	1.75
574268--574382	8	13.4	8	83	11	90	2	15	1	80	0.92
574248--574401	19	8.5	17	73	17	89	3	13	3	79	0.97
574248--574401	9	16.8	9	74	12	84	3	13	3	79	0.97
574258--574311	26	2.1	26	83	10	67	1	16	3	77	1.00
574241--574336	39	2.5	41	81	11	112	1	20	2	76	0.96
574276--574354	27	2.9	28	80	14	94	1	18	1	78	0.89
574342--574401	7	8.6	7	80	12	61	6	3	5	85	0.84
580036--580154	44	2.7	43	84	6	123	34	20	25	20	1.96
580060--580154	44	2.2	44	88	0	145	31	22	23	23	1.98
580277--580336	28	2.1	30	84	12	81	50	13	15	21	1.78
585917--586002	39	2.2	39	79	8	95	36	18	26	18	1.94
587536--587596	29	2.1	30	81	3	70	39	18	8	34	1.80
587720--587848	18	7.1	17	67	25	52	55	3	7	33	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587750--587801	21	2.7	19	82	17	63	55	1	5	36	1.35
587877--588001	17	7.6	16	71	19	73	32	10	4	52	1.57
587867--587966	23	4.4	22	70	22	64	31	11	7	51	1.64
587890--588002	22	5.0	22	75	19	90	34	10	3	51	1.54
587890--588005	8	15.1	8	72	20	81	33	11	3	51	1.54
587865--587997	68	2.0	68	93	3	232	32	11	5	51	1.60
587966--588037	22	3.4	22	78	14	62	37	9	1	51	1.44
587890--588005	31	3.6	31	73	18	94	33	11	3	51	1.54
588129--588180	2	26.0	2	100	0	104	50	0	0	50	1.00
588207--588287	8	10.5	8	77	19	84	53	0	11	35	1.37
588213--588281	22	3.2	22	86	12	106	53	0	11	34	1.37
588315--588456	22	6.3	22	74	18	91	35	9	1	53	1.42
588307--588456	30	4.7	30	71	21	119	36	9	1	53	1.42
588307--588456	8	19.8	8	72	19	101	36	9	1	53	1.42
590935--591137	44	4.6	44	90	3	291	37	6	23	32	1.81
590944--591137	89	2.2	89	90	1	300	38	7	23	31	1.82
591477--591526	23	2.2	23	92	0	82	32	8	24	36	1.84
593063--593177	38	3.0	38	75	11	117	20	27	20	31	1.97
593062--593177	39	3.0	38	72	15	112	21	27	19	31	1.98
594033--594233	40	5.1	40	88	0	296	34	27	13	24	1.93
596804--596886	22	3.4	24	82	15	98	51	1	7	39	1.37
596796--596865	25	2.7	27	87	10	94	51	2	5	40	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596831--596863	17	1.9	17	93	0	57	54	0	6	39	1.25
597017--597079	34	1.9	32	87	6	90	52	4	4	38	1.44
597111--597203	2	45.0	2	77	14	91	45	3	2	49	1.30
597131--597317	8	25.9	8	74	21	91	37	7	2	52	1.42
597180--597301	7	17.6	7	71	18	62	35	8	2	54	1.44
597233--597299	15	4.5	15	73	16	59	34	5	2	56	1.39
597127--597293	6	25.8	6	75	14	68	38	6	1	53	1.38
597164--597333	43	4.1	43	78	12	160	37	7	2	52	1.41
597226--597316	13	6.9	15	65	30	55	35	6	3	54	1.43
597312--597351	17	2.4	17	82	0	53	57	2	0	40	1.12
597338--597382	21	2.2	21	80	7	58	48	2	4	44	1.35
597540--597597	19	3.1	18	85	11	73	39	5	1	53	1.33
597576--597663	38	2.3	38	82	9	99	52	3	5	38	1.42
597653--597718	27	2.4	27	75	14	64	50	3	9	37	1.50
597667--597746	38	2.1	38	83	4	99	51	5	8	35	1.55
597765--597797	15	2.1	16	88	5	50	33	9	3	54	1.47
597774--597897	25	4.8	25	71	17	85	37	6	1	54	1.36
597843--598185	2	175.0	2	62	22	79	45	4	3	46	1.40
597780--597937	29	5.9	29	73	16	103	41	6	1	50	1.37
598055--598106	13	4.3	13	81	18	67	42	1	3	51	1.31
597843--598185	11	31.4	11	65	19	80	45	4	3	46	1.40
598041--598170	13	9.4	13	71	17	66	46	4	2	46	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597842--598182	20	17.0	19	67	21	130	45	4	3	46	1.40
598796--599060	44	6.0	44	83	1	311	32	19	22	25	1.97
600366--600422	29	2.0	29	89	6	89	40	14	5	40	1.68
602451--602480	14	2.1	14	93	0	51	6	23	0	70	1.11
602447--602505	23	2.7	21	74	7	55	5	20	0	74	1.00
602550--602587	10	3.8	10	83	10	51	10	10	0	78	0.95
602539--602587	19	2.5	20	78	15	57	8	10	2	79	1.01
606838--606885	20	2.5	19	83	10	53	33	10	4	52	1.55
609386--609516	44	3.0	43	89	4	190	25	22	19	32	1.98
611430--611627	94	2.1	95	80	6	215	35	16	22	25	1.95
611955--612281	58	5.6	58	89	2	485	34	10	19	35	1.86
611955--612275	176	1.8	175	90	2	518	34	10	19	34	1.87
612536--612682	68	2.2	68	87	0	204	32	14	19	33	1.92
612676--612736	29	2.1	29	90	0	95	44	8	21	26	1.80
614570--614702	69	1.9	69	100	0	266	35	12	30	21	1.91
616335--616524	95	2.0	95	88	2	283	33	13	25	27	1.94
616338--616560	95	2.3	95	83	3	243	33	13	25	27	1.94
616861--617174	58	5.4	58	86	4	409	35	10	20	34	1.87
616856--617174	117	2.7	117	87	4	441	35	10	19	34	1.86
617402--617675	68	4.0	68	82	0	314	29	13	24	32	1.94
617608--617844	81	2.9	81	80	1	269	33	12	21	32	1.91
617813--617870	29	2.0	29	86	0	80	44	6	20	27	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619787--619846	2	30.0	2	89	0	93	50	0	3	46	1.18
620988--621022	3	12.0	3	87	6	54	62	0	2	34	1.10
622143--622180	17	2.2	17	86	9	51	60	5	5	28	1.40
624396--624441	2	23.0	2	86	0	65	50	0	4	45	1.21
625571--625616	3	15.7	3	86	4	67	60	0	4	34	1.16
627347--627459	24	4.7	24	90	2	165	36	20	18	24	1.95
630956--631004	3	16.7	3	82	4	64	59	0	6	34	1.22
632110--632144	2	17.5	2	100	0	70	51	0	0	48	1.00
632348--632394	11	4.2	11	86	5	58	68	4	6	21	1.30
632351--632511	71	2.1	78	82	10	194	66	1	7	24	1.27
633062--633163	37	2.8	37	86	0	132	32	14	12	40	1.84
633731--633868	58	2.4	58	95	0	240	26	20	23	30	1.98
633955--635435	106	14.0	106	88	1	1985	23	17	24	34	1.96
635810--635845	18	2.0	18	94	0	63	47	27	5	19	1.72
636262--636331	22	3.2	22	91	0	122	22	14	27	35	1.93
636956--636998	11	3.6	11	81	12	50	2	16	2	79	0.95
641527--641621	28	3.3	27	69	19	77	70	3	10	15	1.28
642223--642334	15	7.4	15	66	22	56	66	0	5	26	1.18
642226--642321	12	7.8	13	68	24	57	66	1	5	27	1.19
642223--642270	22	2.2	22	88	7	71	68	2	0	29	1.01
642287--642331	12	3.7	12	81	3	54	66	0	4	28	1.11
642890--642979	37	2.4	37	88	0	126	34	11	13	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644025--644083	20	3.0	20	87	5	75	16	27	25	30	1.97
644026--644114	10	9.2	9	70	13	61	16	28	25	29	1.97
644026--644087	30	2.1	28	85	14	81	16	29	25	29	1.96
644075--644113	19	2.1	19	90	0	60	20	25	25	28	1.99
644102--644145	19	2.3	19	80	0	52	18	43	27	11	1.84
644141--644184	7	6.4	7	84	5	63	13	27	29	29	1.94
651347--651390	7	6.4	7	86	5	63	18	27	27	27	1.98
651334--651391	27	2.1	27	81	6	64	17	32	25	24	1.96
651347--651390	20	2.1	21	87	4	63	18	27	27	27	1.98
652984--653012	11	2.7	11	94	5	51	0	0	13	86	0.58

Tables:   1   2   3   4   5   6