genome.fa.s9617.2.7.7.80.10.50.1000.15.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

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

This is table  15  of  16  ( 1887 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)
3053570--3053661	21	4.3	21	70	20	73	26	28	14	31	1.94
3054111--3054156	19	2.4	19	82	7	58	19	0	15	65	1.28
3054162--3054201	12	3.1	13	85	10	55	35	15	7	42	1.75
3055759--3055792	13	2.6	14	86	13	54	44	8	5	41	1.60
3058034--3058187	76	2.0	77	98	1	301	24	22	19	33	1.97
3058222--3058252	3	10.3	3	92	0	53	64	0	35	0	0.94
3067395--3067422	7	4.0	7	100	0	56	28	0	42	28	1.56
3072728--3072942	109	2.0	109	96	1	396	38	6	7	47	1.57
3072991--3073016	2	13.0	2	100	0	52	50	0	0	50	1.00
3074313--3074356	21	2.0	22	82	4	54	47	2	2	47	1.27
3075719--3075778	31	2.0	30	84	15	79	35	6	8	50	1.59
3076365--3076433	37	1.9	35	85	5	93	53	5	1	39	1.34
3079233--3079280	18	2.7	18	86	0	78	27	43	12	16	1.84
3079817--3079861	20	2.3	20	84	3	65	37	20	24	17	1.93
3079845--3079908	19	3.6	19	70	20	66	45	20	20	14	1.85
3079946--3080000	20	2.8	20	91	2	85	16	27	23	32	1.96
3081863--3081901	14	2.8	14	84	0	51	35	0	17	46	1.49
3082028--3082081	14	3.5	14	77	22	63	48	20	20	11	1.80
3082113--3082200	20	4.4	20	80	5	115	15	21	23	38	1.92
3082093--3082180	40	2.4	36	81	12	99	17	20	20	42	1.90
3082407--3082454	20	2.5	19	80	6	69	22	18	22	35	1.96
3082415--3082493	20	4.0	20	77	6	70	25	17	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083307--3083351	22	2.0	22	91	0	72	22	17	22	37	1.94
3085765--3085913	19	8.7	18	67	20	61	42	20	22	14	1.88
3085785--3085913	33	4.0	31	82	10	152	43	20	23	13	1.86
3085789--3085913	66	1.9	65	93	1	214	44	20	23	12	1.85
3085903--3085944	19	2.2	19	86	0	57	14	21	23	40	1.90
3085910--3085972	19	3.3	19	91	4	101	12	17	23	46	1.83
3085963--3086018	14	3.7	14	78	17	67	8	25	23	42	1.82
3085944--3086023	32	2.5	32	95	2	142	11	23	20	45	1.83
3086138--3086173	14	2.6	14	86	4	56	44	25	0	30	1.54
3087491--3087556	20	3.2	21	68	8	55	19	19	36	24	1.95
3087823--3087999	89	2.0	89	89	7	270	48	19	11	20	1.80
3089666--3089787	20	6.8	19	69	20	84	43	20	23	12	1.86
3089715--3089770	14	3.6	14	74	21	58	39	25	25	10	1.87
3089691--3089787	33	2.9	33	95	1	167	41	22	24	11	1.87
3090353--3090445	20	4.6	20	73	15	84	26	17	23	32	1.96
3090352--3090500	41	3.7	40	72	13	108	28	18	20	32	1.96
3090478--3090527	21	2.4	22	80	6	68	36	18	26	20	1.95
3094815--3094865	22	2.3	21	83	9	66	19	0	5	74	1.02
3094817--3094851	18	1.9	18	88	11	54	22	0	2	74	0.95
3097770--3097821	19	2.7	19	81	0	68	59	0	0	40	0.97
3098183--3098583	202	2.0	198	98	1	766	21	12	33	32	1.90
3098601--3098652	21	2.6	20	82	8	61	28	0	0	71	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3100751--3100813	28	2.2	28	82	2	72	39	6	9	44	1.62
3100825--3100897	28	2.6	29	89	6	107	46	13	4	35	1.63
3102382--3102495	57	2.0	60	94	5	207	36	7	10	45	1.66
3122592--3122644	19	2.8	19	80	11	63	28	0	3	67	1.07
3124275--3124445	83	2.0	86	92	4	285	26	29	15	28	1.96
3128533--3128596	25	2.5	26	82	12	80	50	3	1	45	1.27
3128588--3128617	15	2.1	14	93	6	51	36	0	3	60	1.14
3128747--3128802	20	2.8	20	74	12	62	53	0	1	44	1.11
3130430--3130538	54	2.0	55	83	1	139	50	3	9	36	1.52
3130795--3130868	31	2.3	34	81	11	84	47	1	14	36	1.53
3138636--3138679	16	2.8	16	89	3	63	47	13	2	36	1.56
3138906--3138967	31	2.0	31	96	0	115	35	8	29	27	1.85
3144356--3144394	20	2.0	20	85	5	53	30	17	2	48	1.61
3145106--3145161	18	3.4	16	76	13	51	67	1	3	26	1.16
3146230--3146300	35	2.0	35	83	5	90	69	2	1	26	1.11
3155085--3155225	68	2.1	67	98	1	273	34	5	14	45	1.68
3156830--3156865	2	18.0	2	100	0	72	50	0	0	50	1.00
3159409--3159442	15	2.2	16	89	5	52	38	2	50	8	1.49
3161099--3161130	3	10.7	3	100	0	64	68	0	0	31	0.90
3166072--3166129	23	2.6	23	81	5	66	50	10	25	13	1.74
3177320--3177344	2	12.5	2	100	0	50	0	52	0	48	1.00
3182683--3182912	122	1.9	122	82	0	289	29	13	20	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3185997--3186028	15	2.1	15	94	0	55	65	6	15	12	1.44
3186095--3186165	31	2.3	32	81	11	87	35	14	5	45	1.68
3187191--3187230	21	1.9	21	84	0	53	22	30	5	42	1.75
3199309--3199357	13	3.7	13	89	10	73	42	0	2	55	1.11
3199309--3199377	25	2.7	26	84	8	79	40	1	1	56	1.17
3199288--3199388	44	2.3	47	80	11	106	45	0	0	52	1.14
3199308--3199388	13	6.2	12	77	12	63	41	1	1	55	1.15
3199319--3199390	20	3.7	19	82	10	76	41	1	0	56	1.07
3200363--3200475	52	2.2	52	91	1	183	44	9	7	38	1.67
3200842--3200871	15	2.0	15	93	0	51	43	0	0	56	0.99
3200880--3200910	16	1.9	16	93	0	53	41	0	0	58	0.98
3201724--3202184	176	2.6	182	86	2	630	42	14	16	26	1.87
3202105--3202151	20	2.4	19	79	10	58	55	10	14	19	1.68
3202114--3202156	20	2.3	20	88	11	65	53	11	13	20	1.71
3203799--3203935	70	2.0	67	94	5	240	23	24	19	32	1.98
3205144--3205871	128	5.7	128	92	1	1218	21	24	20	33	1.97
3205144--3205871	377	1.9	382	93	1	1250	21	24	20	33	1.97
3206816--3206894	21	3.8	21	88	5	97	21	22	34	21	1.97
3206824--3206899	21	3.6	21	87	3	109	21	23	32	22	1.98
3206904--3206945	21	2.0	21	90	0	66	21	11	40	26	1.88
3208404--3208448	21	2.1	21	84	8	56	31	26	24	17	1.97
3209622--3209749	31	4.1	31	78	9	143	26	17	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3209708--3209804	30	3.2	30	88	1	113	22	20	24	31	1.98
3209735--3209807	30	2.4	30	95	0	128	24	20	24	30	1.99
3211452--3211531	29	2.7	29	78	18	83	62	1	0	36	1.03
3211453--3211543	32	3.0	30	76	15	89	60	2	0	37	1.09
3211730--3211829	50	2.0	50	90	3	157	17	32	33	18	1.93
3218421--3218753	111	3.0	111	96	0	612	45	11	8	35	1.70
3219054--3219164	50	2.2	51	76	10	120	26	27	28	17	1.97
3226565--3226617	21	2.5	21	81	0	61	20	28	16	33	1.95
3226610--3226659	20	2.5	20	93	0	82	40	18	20	22	1.92
3226855--3226920	22	3.0	22	86	0	96	24	37	15	22	1.92
3227257--3227347	20	4.6	20	87	1	103	14	17	23	45	1.85
3227311--3227354	20	2.2	20	91	0	70	11	13	20	54	1.69
3229244--3229293	20	2.5	20	93	0	82	44	24	16	16	1.86
3229267--3229422	34	4.4	34	72	15	136	43	21	19	15	1.87
3229335--3229403	20	3.5	20	91	0	102	36	23	20	20	1.95
3229452--3229514	20	3.2	20	86	0	81	23	17	20	38	1.93
3229998--3230102	21	5.0	21	75	3	95	21	36	18	23	1.95
3229995--3230116	42	2.9	42	78	4	122	22	35	18	23	1.96
3231255--3231308	24	2.2	24	93	0	90	40	20	18	20	1.91
3232154--3232240	20	4.3	20	91	0	129	22	19	26	31	1.98
3232227--3232299	20	3.7	20	94	0	128	19	19	21	39	1.92
3232296--3232341	21	2.2	21	84	7	58	43	17	23	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3233253--3233291	6	6.7	6	88	5	53	23	0	0	76	0.78
3238221--3238310	46	2.0	45	81	12	105	50	4	0	45	1.22
3238927--3238979	24	2.2	25	83	10	65	49	3	11	35	1.57
3240527--3240605	36	2.2	36	93	2	133	32	15	18	32	1.92
3245109--3245169	31	2.0	31	90	0	95	34	11	27	26	1.91
3245744--3245822	36	2.2	36	95	2	142	32	15	20	31	1.93
3246225--3246293	35	1.9	36	94	2	122	33	17	17	31	1.93
3245609--3246548	475	2.0	476	98	0	1810	27	19	18	34	1.95
3246834--3246918	31	2.7	31	100	0	170	18	22	8	50	1.73
3247367--3247498	28	4.7	29	75	9	94	37	3	6	53	1.43

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