genome.fa.s8654.2.7.7.80.10.50.1000.16.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  16  of  18  ( 2052 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)
3152536--3152589	27	2.1	25	89	6	81	42	1	0	55	1.10
3152633--3152666	11	2.9	11	91	8	50	52	38	8	0	1.33
3152633--3152668	17	2.1	17	94	0	63	50	41	8	0	1.33
3152632--3152703	23	3.1	23	81	0	63	41	44	4	9	1.56
3152665--3152713	6	8.5	6	82	8	66	36	42	0	20	1.52
3152665--3152713	17	2.9	16	84	6	62	36	42	0	20	1.52
3152665--3152713	23	2.1	23	100	0	98	36	42	0	20	1.52
3161438--3161542	42	2.4	44	78	10	117	37	14	21	26	1.92
3161454--3161541	42	2.1	43	86	2	124	37	14	21	26	1.92
3168448--3168476	15	1.9	15	100	0	58	62	13	10	13	1.55
3171746--3171906	42	3.9	42	83	4	175	27	20	17	34	1.95
3175903--3176210	159	1.9	160	79	5	338	36	17	18	26	1.93
3176007--3176428	203	2.1	202	88	2	623	34	18	18	28	1.95
3176286--3176349	20	3.2	20	63	12	51	39	10	21	28	1.87
3176682--3176722	3	13.3	3	84	5	55	39	0	0	60	0.96
3176688--3176741	27	2.1	27	86	6	76	40	3	0	55	1.17
3177905--3177931	14	1.9	14	100	0	54	29	7	3	59	1.42
3178144--3178181	17	2.2	17	86	9	51	23	7	10	57	1.58
3184733--3184814	8	11.5	8	71	19	58	17	23	10	48	1.78
3184733--3184802	20	3.7	20	85	14	96	18	21	10	50	1.76
3184733--3184814	14	5.8	15	73	18	61	17	23	10	48	1.78
3184781--3184831	22	2.3	22	75	0	57	15	25	13	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3186483--3186604	20	6.0	20	81	1	109	23	34	26	15	1.95
3186487--3186605	41	2.9	40	77	4	121	23	34	25	16	1.95
3189295--3189397	20	5.0	21	89	4	138	19	38	27	14	1.90
3190619--3190692	22	3.5	22	90	3	107	29	24	14	31	1.95
3191078--3191148	34	2.1	34	89	2	108	23	29	15	30	1.95
3191546--3191668	20	6.0	20	82	9	149	26	19	32	21	1.97
3194323--3194354	3	10.7	3	100	0	64	68	0	0	31	0.90
3194724--3194822	38	2.6	38	91	1	155	35	18	12	34	1.88
3194785--3195036	97	2.6	97	88	3	350	34	16	10	38	1.84
3194785--3195073	97	3.0	97	85	5	311	33	17	10	38	1.84
3195308--3195521	113	1.9	113	88	1	322	36	13	25	24	1.92
3203052--3203124	21	3.5	21	84	3	94	17	41	30	10	1.84
3205265--3205291	2	13.5	2	100	0	54	48	0	0	51	1.00
3205344--3205370	3	9.0	3	100	0	54	33	0	0	66	0.92
3205545--3205942	138	2.9	136	83	4	417	29	14	14	42	1.84
3207028--3207072	19	2.4	19	96	0	81	46	13	8	31	1.74
3207484--3207533	21	2.4	21	96	0	91	30	20	12	38	1.88
3208145--3208169	12	2.1	12	100	0	50	32	8	8	52	1.60
3210093--3210242	77	2.0	76	88	4	221	26	9	8	56	1.59
3211508--3211716	95	2.2	95	84	5	262	28	16	25	29	1.97
3212054--3212608	54	10.3	54	91	0	840	29	18	20	32	1.96
3213017--3213056	18	2.2	20	86	13	59	35	0	10	55	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3218728--3218899	95	1.8	95	89	2	274	29	16	25	28	1.97
3219273--3219665	54	7.3	54	90	1	590	28	19	18	33	1.95
3222251--3222300	10	5.1	10	85	4	75	4	44	0	52	1.20
3222248--3222300	19	2.7	19	91	2	79	5	41	0	52	1.25
3224689--3224730	21	2.0	21	90	0	66	26	16	21	35	1.94
3225029--3225103	31	2.4	31	97	0	141	25	21	24	29	1.99
3226304--3226345	21	2.0	20	86	13	59	50	9	16	23	1.75
3227240--3227281	21	2.0	21	95	0	75	23	16	21	38	1.93
3230404--3230447	21	2.1	21	95	0	79	18	20	20	40	1.91
3230530--3230564	2	17.5	2	100	0	70	51	0	0	48	1.00
3232066--3232241	42	4.2	43	82	2	196	26	24	17	31	1.97
3232066--3232261	85	2.3	83	85	6	257	25	24	17	32	1.97
3232066--3232261	43	4.6	43	82	2	218	25	24	17	32	1.97
3235491--3235631	45	3.1	45	94	0	255	29	22	23	24	1.99
3238321--3238375	27	2.0	27	96	0	101	29	18	20	32	1.96
3261354--3261388	17	2.1	17	94	0	61	42	5	5	45	1.51
3268547--3268572	4	6.5	4	100	0	52	23	0	0	76	0.78
3268814--3268889	32	2.3	32	79	4	89	44	11	6	36	1.67
3285294--3285331	14	2.6	15	87	4	51	81	5	2	10	0.94
3293228--3293254	7	3.9	7	100	0	54	25	0	0	74	0.83
3294683--3295034	176	2.0	176	100	0	704	26	10	21	42	1.84
3297527--3297647	26	4.6	27	77	12	110	66	0	14	19	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3297554--3297655	53	1.9	54	83	2	134	67	0	12	18	1.28
3297591--3297655	27	2.4	28	79	7	89	69	0	9	21	1.16
3297527--3297662	53	2.6	53	74	6	132	66	0	12	20	1.29
3299787--3299851	30	2.2	30	82	0	76	12	26	24	36	1.91
3301445--3301506	14	4.2	14	74	14	54	40	6	11	41	1.66
3311593--3311634	20	2.1	20	100	0	84	33	14	23	28	1.94
3316928--3316972	19	2.4	19	100	0	90	13	13	33	40	1.83
3322234--3322294	19	3.2	19	75	11	52	24	31	29	14	1.95
3325032--3325069	20	1.9	20	94	0	67	21	36	21	21	1.95
3329052--3329102	22	2.4	21	81	12	59	66	5	3	23	1.30
3334035--3334430	182	2.2	183	85	4	541	43	13	14	28	1.83
3334400--3334450	21	2.4	21	100	0	102	37	13	11	37	1.82
3334218--3334633	205	2.0	203	92	1	681	42	12	14	30	1.83
3337158--3337282	66	1.9	66	84	0	169	33	2	40	24	1.68
3341580--3342737	200	5.8	201	90	2	1769	41	12	14	32	1.82
3341580--3342737	399	2.9	399	90	1	1822	41	12	14	32	1.82
3342710--3342751	22	2.0	22	85	4	59	30	9	9	50	1.67
3343029--3343108	36	2.2	36	93	0	142	26	35	5	33	1.78
3343029--3343092	18	3.6	18	80	16	78	26	35	4	32	1.77
3343045--3343112	18	3.8	18	83	16	97	25	38	4	32	1.76
3345673--3345720	24	2.0	24	83	0	60	33	4	12	50	1.59
3350803--3351063	118	2.2	117	84	3	319	31	17	13	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3352391--3352472	29	3.0	26	74	15	67	50	6	14	29	1.67
3353222--3353307	5	16.8	5	75	12	61	73	0	2	24	0.95
3353211--3353307	23	4.0	23	77	11	79	72	1	3	23	1.06
3353283--3353334	15	3.2	16	81	8	61	63	0	7	28	1.22
3353245--3353333	42	2.1	40	84	12	108	69	0	5	24	1.10
3354452--3354517	3	22.3	3	77	20	68	65	1	0	33	1.02
3354453--3354517	10	6.1	11	82	13	75	64	1	0	33	1.03
3354456--3354528	16	4.2	18	76	15	64	61	2	0	35	1.10
3354523--3354577	29	1.9	29	89	10	87	47	7	0	45	1.30
3354550--3354605	22	2.5	23	73	2	60	42	5	1	50	1.35
3354519--3354585	27	2.6	25	80	15	73	43	5	1	49	1.36
3354624--3354679	22	2.4	25	82	8	64	44	8	1	44	1.45
3354599--3354775	60	3.0	61	84	7	247	41	9	5	43	1.59
3354683--3354739	23	2.5	23	97	0	105	38	10	5	45	1.61
3354725--3354814	38	2.4	38	85	3	121	43	12	4	40	1.62
3354599--3354775	59	3.0	59	81	7	223	41	9	5	43	1.59
3354802--3354827	13	2.0	13	100	0	52	53	7	0	38	1.30
3354747--3354838	38	2.5	38	82	5	100	45	11	2	40	1.53
3367026--3367078	15	3.5	15	85	10	63	64	1	5	28	1.27
3367403--3367452	17	2.9	17	90	0	73	36	12	8	44	1.71
3369641--3370273	5	126.0	5	92	4	702	51	0	7	40	1.30
3370340--3370510	37	4.7	37	79	10	149	42	8	5	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3370343--3370572	72	3.1	70	73	14	196	40	8	6	44	1.60
3374459--3374668	65	3.3	63	78	12	196	30	24	18	26	1.97
3383101--3383260	65	2.5	65	84	7	193	30	24	19	25	1.98
3383238--3383280	19	2.4	19	84	7	54	23	27	20	27	1.99
3383983--3384606	103	6.1	103	87	1	823	32	16	11	39	1.84
3383983--3384606	205	3.1	203	86	3	835	32	16	11	39	1.84
3384946--3385068	44	2.8	45	82	3	142	31	17	20	30	1.96
3386911--3386977	29	2.4	29	85	9	86	20	11	5	61	1.51
3387450--3387480	10	3.1	10	90	0	53	32	6	0	61	1.21
3387983--3388025	19	2.2	20	95	4	79	27	13	20	37	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18