genome.fa.s8003.2.7.7.80.10.50.1000.3.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: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3297763

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1618 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)
469608--469663	20	2.8	20	91	0	85	10	16	23	50	1.76
469627--469670	20	2.2	20	91	0	70	11	13	20	54	1.69
471400--471449	18	2.8	18	93	0	91	32	20	4	44	1.70
471597--471744	20	7.4	20	89	0	215	39	26	18	15	1.91
471787--471853	20	3.5	19	82	8	82	17	20	26	34	1.96
472371--472431	21	2.9	22	78	7	63	22	39	16	21	1.92
473854--473915	14	4.3	14	77	6	61	40	1	12	45	1.52
474029--474067	20	2.0	20	94	0	69	48	23	20	7	1.75
474071--474271	34	5.4	36	73	13	122	23	19	22	34	1.97
474110--474313	20	10.9	20	76	13	200	24	19	23	33	1.97
474061--474313	54	4.6	54	79	8	269	24	18	22	33	1.97
474284--474553	140	1.9	140	98	0	522	42	15	13	28	1.85
474620--474653	6	5.7	6	85	0	50	17	2	20	58	1.51
474613--474655	12	3.6	12	87	0	59	16	4	25	53	1.62
476690--476726	14	2.6	14	91	4	56	8	18	21	51	1.72
476925--476971	24	2.0	24	95	0	85	34	17	21	27	1.95
477787--477894	20	5.3	20	75	8	83	29	20	23	26	1.99
478220--478245	9	2.9	9	100	0	52	23	42	11	23	1.86
494400--494429	2	15.0	2	100	0	60	50	0	0	50	1.00
494874--494901	14	2.0	14	100	0	56	50	7	0	42	1.30
494952--494985	17	1.9	18	94	5	61	26	5	8	58	1.51
499489--499523	16	2.4	14	82	17	52	45	14	0	40	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499493--499523	16	1.9	16	100	0	62	45	16	0	38	1.47
516185--516224	3	13.0	3	89	5	62	35	2	0	62	1.09
516233--516323	33	2.8	33	81	3	94	53	21	0	24	1.46
520623--520682	31	1.9	31	93	0	102	45	5	5	45	1.47
520701--520975	22	12.6	22	82	8	307	48	8	0	43	1.33
520701--520975	44	6.3	43	86	4	354	48	8	0	43	1.33
520701--520978	65	4.2	65	84	4	371	47	8	0	43	1.33
520699--520975	109	2.5	109	87	3	414	48	8	0	43	1.33
520742--520992	87	2.9	84	83	6	297	48	7	0	43	1.34
521496--521956	111	4.1	111	92	0	733	45	13	15	26	1.82
521826--522282	182	2.5	181	92	1	752	43	12	16	27	1.84
523319--523386	33	2.2	32	81	7	77	42	0	1	55	1.08
525933--526032	35	2.9	35	79	5	121	37	18	24	21	1.94
527457--527489	2	16.5	2	93	0	57	0	48	3	48	1.17
531662--532380	229	3.1	229	97	0	1354	44	7	8	39	1.63
532429--532475	20	2.4	19	89	10	76	55	10	17	17	1.69
532610--532656	20	2.4	19	82	10	67	53	10	17	19	1.72
532619--532661	20	2.3	19	88	11	63	51	11	16	20	1.75
534877--534920	21	2.1	21	91	0	70	40	11	31	15	1.83
534954--535019	33	2.0	33	87	0	96	28	1	46	22	1.61
536959--538927	199	9.9	199	97	0	3665	36	15	17	31	1.90
536959--538927	399	4.9	398	97	0	3665	36	15	17	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540388--540470	6	13.3	6	73	7	58	37	8	34	19	1.82
540391--540467	36	2.1	36	87	0	109	36	9	35	19	1.84
540418--540478	15	4.3	15	81	12	83	36	6	36	21	1.79
540388--540470	18	4.8	18	75	8	82	37	8	34	19	1.82
540403--540483	6	13.5	6	77	0	54	35	6	35	22	1.79
540391--540470	12	6.4	12	80	8	88	36	8	35	20	1.83
540439--540483	15	3.0	15	93	0	72	37	2	35	24	1.68
541952--542475	183	2.9	182	92	2	838	34	14	16	34	1.89
544919--544983	25	2.6	25	77	0	76	33	9	15	41	1.79
545330--545402	23	3.2	23	88	0	101	34	4	21	39	1.73
545830--545866	18	2.1	18	89	0	56	32	5	10	51	1.60
545822--545868	24	2.0	24	86	0	67	34	4	14	46	1.64
546124--546210	39	2.2	39	91	0	147	48	19	13	18	1.81
546632--546704	23	3.2	23	88	0	101	34	4	21	39	1.73
547062--547134	23	3.2	23	88	0	101	34	4	21	39	1.73
546431--547483	430	2.5	430	97	0	2000	42	7	11	38	1.70
547280--547346	30	2.2	29	82	10	73	52	4	0	43	1.21
547922--548289	183	2.0	183	91	2	605	46	8	4	41	1.53
551550--551574	4	6.2	4	100	0	50	24	0	0	76	0.80
552932--553000	34	2.1	33	81	7	79	28	1	4	65	1.21
562863--562900	20	1.9	20	100	0	76	36	5	28	28	1.79
564513--564560	19	2.5	19	93	0	78	47	2	2	47	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581434--581523	45	2.0	45	97	0	171	41	26	10	22	1.85
581598--581633	18	2.0	18	88	0	54	52	0	2	44	1.15
582607--582655	22	2.2	22	100	0	98	32	22	18	26	1.97
588068--588108	18	2.2	19	86	4	57	12	19	0	68	1.21
588327--588379	7	7.6	7	83	8	63	47	15	0	37	1.45
588326--588379	20	2.5	22	79	11	67	48	14	0	37	1.45
588316--588400	28	2.9	27	77	11	80	45	20	0	34	1.51
593814--593839	6	4.3	6	100	0	52	69	0	0	30	0.89
595402--595485	34	2.5	35	84	3	100	39	8	5	46	1.58
595561--595649	29	3.0	30	73	12	85	43	11	5	39	1.64
596522--596557	16	2.3	15	90	4	54	41	0	5	52	1.24
596688--596744	15	3.7	15	77	9	60	22	36	26	14	1.92
596692--596754	32	2.0	32	90	0	99	25	36	22	15	1.94
596688--596756	15	4.3	16	75	10	52	23	34	26	15	1.95
596793--596834	15	2.7	15	92	3	66	28	30	26	14	1.95
597466--597505	16	2.4	17	84	16	57	35	0	5	60	1.19
605354--605950	296	2.0	298	97	1	1126	30	16	18	34	1.93
607125--607161	2	18.5	2	100	0	74	0	48	0	51	1.00
607652--607747	4	24.0	4	100	0	192	25	0	50	25	1.50
608042--608097	17	3.0	20	76	15	64	44	0	3	51	1.18
616265--616312	18	2.5	21	83	16	68	29	0	0	70	0.87
620964--621002	20	2.0	20	94	0	69	33	12	15	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621577--621624	11	4.1	11	80	15	51	77	4	14	4	1.08
622823--622982	6	26.2	6	95	2	284	50	16	0	33	1.50
624078--624234	66	2.4	65	79	4	172	31	14	12	42	1.83
624317--624452	74	1.9	70	85	8	184	33	15	12	38	1.85
624383--624452	32	2.2	33	86	2	97	37	15	11	35	1.84
624456--624575	63	1.9	64	84	5	163	21	22	14	41	1.89
624579--624636	29	2.0	29	90	6	91	24	17	12	46	1.81
625056--625126	6	13.6	5	84	12	58	25	1	0	73	0.92
625075--625125	3	17.3	3	88	11	79	29	0	0	70	0.87
625065--625125	18	3.5	17	89	10	88	29	0	0	70	0.88
629821--629860	21	1.9	21	85	10	55	22	10	2	65	1.35
630770--630805	16	2.2	16	90	0	54	33	5	22	38	1.77
633232--633263	12	2.5	13	90	10	57	59	0	0	40	0.97
635201--635280	3	25.3	3	85	14	76	31	0	0	68	0.90
635204--635288	4	23.5	4	82	15	66	30	0	0	69	0.89
635204--635288	23	3.4	23	80	16	91	30	0	0	69	0.89
635211--635278	22	3.0	23	80	18	54	32	0	0	67	0.91
635524--635610	24	3.6	24	76	11	81	11	16	22	49	1.77
635548--635580	14	2.4	14	94	0	57	6	12	27	54	1.60
636355--636400	16	2.9	16	93	0	83	8	10	21	58	1.58
636473--636505	16	2.1	16	94	0	57	9	12	21	57	1.62
636489--636519	10	3.1	10	100	0	62	9	9	19	61	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637433--637473	17	2.4	17	87	0	55	36	7	24	31	1.83
657398--657442	20	2.2	20	92	0	72	22	11	17	48	1.78
657737--657818	41	2.0	41	95	0	146	28	8	23	40	1.83
661500--661550	26	2.0	26	92	7	86	31	19	3	45	1.69
671343--671388	24	1.9	24	83	16	60	58	6	17	17	1.59
675807--675958	78	1.9	78	86	5	218	53	7	5	32	1.54
676796--676838	21	2.1	20	86	4	59	27	0	4	67	1.10
677809--677845	19	1.9	19	88	0	56	29	29	18	21	1.97
678493--678567	20	3.8	20	83	3	89	16	17	24	42	1.88
678485--678570	20	4.4	20	82	4	86	15	16	23	45	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14