genome.fa.s7754.2.7.7.80.10.50.1000.13.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: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3698414

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

This is table  13  of  15  ( 1710 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)
2966484--2966564	25	3.2	24	65	22	58	32	14	9	43	1.79
2966460--2966601	51	2.8	51	86	1	194	35	13	7	43	1.73
2972774--2972846	38	1.9	38	88	5	112	23	6	23	46	1.76
2980389--2980442	18	2.9	19	86	5	83	40	5	11	42	1.64
2983341--2983400	31	1.9	31	93	0	102	40	6	10	43	1.64
2983424--2983468	22	2.0	22	95	0	81	51	11	0	37	1.38
2983422--2983474	22	2.4	22	87	6	72	54	9	0	35	1.33
2983414--2983870	54	8.5	54	77	13	406	52	9	0	37	1.36
2983446--2983743	32	10.8	31	66	30	142	53	9	0	37	1.33
2983469--2983515	22	2.1	22	88	7	69	57	4	0	38	1.18
2983478--2983520	22	2.0	22	95	0	77	53	6	0	39	1.28
2983480--2983528	22	2.2	22	85	3	62	57	8	0	34	1.29
2983530--2983582	22	2.4	22	90	6	81	52	7	0	39	1.30
2983483--2984008	134	3.9	134	92	2	864	52	9	0	37	1.37
2983588--2983662	22	3.2	22	75	14	69	54	12	0	33	1.37
2983668--2983716	22	2.2	22	85	3	62	57	12	0	30	1.36
2983671--2983797	32	3.2	39	66	31	97	52	11	0	35	1.42
2983768--2983871	32	3.6	31	73	25	118	51	9	0	37	1.41
2983405--2984053	188	3.5	186	82	12	735	52	9	0	37	1.36
2983795--2983838	22	2.2	19	75	24	54	52	6	0	40	1.28
2983800--2983842	22	2.0	22	100	0	86	51	9	0	39	1.34
2983802--2983850	22	2.2	22	88	3	71	55	10	0	34	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2983805--2984039	40	6.2	39	65	21	133	52	10	0	36	1.36
2983496--2984088	268	2.3	268	88	7	898	52	9	0	37	1.36
2983885--2983930	22	2.0	22	83	4	56	56	8	0	34	1.30
2983929--2984025	22	5.2	18	65	28	51	51	8	0	40	1.32
2983617--2984053	54	8.1	54	74	15	338	52	10	0	37	1.37
2983956--2984055	32	3.5	31	69	25	101	53	8	0	39	1.31
2983990--2984038	22	2.2	22	85	3	62	55	12	0	32	1.37
2984033--2984150	15	7.5	15	77	13	121	51	1	0	45	1.17
2984076--2984173	45	2.3	43	87	5	135	47	1	1	50	1.14
2984845--2984904	28	2.1	30	87	6	88	50	1	3	45	1.28
2984864--2984942	42	1.9	41	80	17	92	53	1	5	40	1.31
2985056--2985105	19	2.7	19	90	3	75	26	24	8	42	1.82
2985298--2985338	20	2.0	20	86	9	57	46	36	17	0	1.48
2991073--2991117	2	22.5	2	100	0	90	48	0	0	51	1.00
2991515--2991622	37	3.0	36	75	12	98	48	3	3	44	1.38
2991741--2991783	20	2.3	19	84	11	61	25	30	6	37	1.82
2994272--2994314	6	7.2	6	100	0	86	34	48	16	0	1.46
2994965--2995031	6	11.2	6	100	0	134	0	16	49	34	1.46
2995105--2995175	20	3.4	20	77	11	79	18	23	18	39	1.92
2995120--2995196	23	3.5	23	77	16	99	19	23	18	38	1.93
2995103--2995196	43	2.2	43	96	0	170	18	24	19	38	1.93
2995210--2995263	20	2.7	20	91	5	83	11	16	18	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2995250--2995300	19	2.6	20	90	3	77	15	17	23	43	1.88
3004388--3004460	31	2.4	29	82	6	92	56	12	6	24	1.60
3004757--3004801	13	3.3	13	81	6	54	62	4	2	31	1.27
3004763--3004819	13	4.4	12	77	14	51	59	3	3	33	1.31
3009889--3009932	19	2.5	19	85	10	58	40	11	22	25	1.87
3023278--3025504	4	558.8	4	95	0	3921	25	2	25	47	1.64
3027651--3027693	19	2.3	19	81	18	54	58	0	2	39	1.11
3046162--3046237	20	3.8	20	76	0	71	34	26	10	28	1.90
3046208--3046386	57	3.1	57	92	0	295	37	22	13	26	1.91
3046602--3046631	14	2.1	14	93	0	51	13	16	20	50	1.78
3046694--3046741	20	2.4	20	89	0	78	31	16	22	29	1.96
3046656--3046801	77	1.9	77	92	0	247	26	15	23	33	1.95
3046770--3046829	20	3.0	19	78	9	66	30	15	25	30	1.95
3046658--3046818	77	2.1	77	88	2	234	27	16	24	32	1.96
3053175--3053247	36	2.0	36	83	0	92	32	15	21	30	1.94
3061452--3061538	43	2.0	43	91	2	140	54	14	11	19	1.71
3062227--3062263	20	1.9	19	89	10	58	45	10	24	18	1.81
3063429--3063872	224	2.0	224	92	0	744	28	14	19	37	1.91
3068620--3068659	18	2.2	18	86	0	53	25	17	2	55	1.55
3071750--3071802	21	2.5	22	81	3	54	58	1	5	33	1.32
3072275--3072308	17	2.0	17	94	0	59	32	17	8	41	1.80
3073801--3073849	26	1.9	25	95	4	89	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3074267--3074320	20	2.8	20	83	10	67	27	3	0	68	1.06
3081387--3081420	16	2.1	16	100	0	68	38	5	0	55	1.24
3081671--3081758	2	44.0	2	100	0	176	50	0	0	50	1.00
3084882--3084926	22	2.0	22	95	0	81	46	0	15	37	1.46
3088574--3088598	5	5.0	5	100	0	50	40	0	20	40	1.52
3096947--3097076	21	6.3	21	74	15	119	22	18	20	39	1.93
3096947--3097076	63	2.1	62	91	2	208	22	18	20	39	1.93
3097963--3098046	21	4.0	21	77	11	100	30	27	21	20	1.98
3097977--3098057	42	1.9	42	94	0	144	33	22	22	22	1.97
3097928--3098046	63	1.9	63	92	0	202	33	24	20	21	1.97
3098237--3098275	17	2.4	17	86	4	53	38	7	2	51	1.44
3100471--3100525	24	2.4	24	87	6	78	20	43	3	32	1.69
3104609--3104640	16	2.0	16	100	0	64	6	50	6	37	1.53
3109401--3109458	28	2.1	28	100	0	116	44	10	20	24	1.82
3117798--3117826	14	2.1	14	100	0	58	51	0	27	20	1.47
3118277--3118336	27	2.2	27	96	0	111	13	10	36	40	1.78
3120127--3120421	75	3.9	74	86	1	374	40	12	35	11	1.80
3120489--3120668	12	14.8	12	73	17	79	47	1	49	1	1.21
3120489--3120557	27	2.5	26	86	9	93	49	1	47	1	1.19
3120497--3120647	6	24.2	6	82	7	113	47	1	50	0	1.17
3128559--3128790	128	1.8	128	99	0	455	32	11	13	42	1.80
3130008--3130762	260	2.9	258	83	6	900	28	17	17	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3140549--3141399	285	3.0	285	98	0	1641	39	18	14	27	1.89
3149927--3150083	64	2.5	64	82	6	176	33	19	18	28	1.96
3150689--3150733	23	2.0	23	86	0	63	20	26	26	26	1.99
3153684--3153711	6	4.7	6	100	0	56	50	0	0	50	1.00
3154523--3154610	31	2.8	32	96	1	160	51	6	5	36	1.52
3156030--3156055	3	8.7	3	100	0	52	30	0	0	69	0.89
3156288--3156433	73	2.0	73	94	0	256	23	19	13	43	1.86
3164563--3164606	23	1.9	23	90	0	70	25	2	18	54	1.55
3169352--3169390	10	3.9	10	93	0	51	51	0	2	46	1.14
3169360--3169390	2	15.5	2	93	0	53	51	0	0	48	1.00
3169661--3169699	2	19.5	2	100	0	78	48	0	0	51	1.00
3186876--3186931	20	2.8	20	82	17	64	73	3	7	16	1.20
3196957--3197004	20	2.3	21	79	10	55	16	18	6	58	1.59
3200962--3201004	18	2.4	18	84	7	52	65	2	9	23	1.34
3206098--3206165	23	2.8	23	91	6	100	61	4	4	29	1.35
3207963--3208006	2	22.0	2	100	0	88	50	0	0	50	1.00
3218567--3218680	31	3.6	31	77	2	102	46	10	5	37	1.61
3219434--3219531	21	4.8	20	72	15	74	36	22	19	21	1.95
3219498--3219691	20	9.6	20	81	5	221	35	25	19	19	1.95
3219498--3219691	60	3.2	60	83	0	253	35	25	19	19	1.95
3220780--3220806	6	4.5	6	100	0	54	14	0	37	48	1.45
3221978--3222145	75	2.3	75	85	5	218	36	2	5	55	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3222199--3222491	70	4.1	72	79	11	302	55	5	3	35	1.41
3222180--3222429	71	3.5	71	79	10	217	57	4	3	35	1.33
3225815--3225898	2	42.0	2	100	0	168	50	0	0	50	1.00
3236024--3236054	2	15.5	2	100	0	62	51	0	0	48	1.00
3236856--3236922	27	2.3	29	85	12	102	35	16	19	28	1.93
3236870--3236928	27	2.2	27	100	0	118	28	16	28	25	1.97
3239193--3240055	44	19.6	44	66	9	269	29	20	20	29	1.98
3239164--3240113	132	7.2	132	89	0	1418	29	20	20	29	1.98
3240442--3240563	36	3.4	37	89	5	178	38	13	21	26	1.91
3240467--3240580	21	6.0	21	69	26	85	42	14	19	24	1.88

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