genome.fa.s1111.2.7.7.80.10.50.1000.14.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

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

This is table  14  of  17  ( 1987 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)
3042494--3043456	473	2.0	473	82	2	1148	27	17	25	29	1.98
3042967--3043502	278	1.9	278	82	3	677	26	17	26	29	1.98
3042967--3043505	139	3.9	139	81	3	593	26	17	26	29	1.98
3043803--3043904	51	2.0	51	94	0	177	37	14	16	31	1.89
3043858--3044056	67	3.0	67	89	2	294	39	13	17	30	1.88
3044016--3044092	36	2.1	36	82	0	91	35	3	19	41	1.70
3044120--3044408	99	2.9	99	84	2	337	37	9	17	35	1.83
3056679--3056739	11	5.7	11	78	7	63	14	27	31	26	1.95
3056659--3056738	21	3.8	21	89	1	106	15	25	32	27	1.95
3058621--3058670	24	2.1	24	100	0	100	50	8	12	30	1.68
3060397--3060447	20	2.6	19	79	14	50	49	1	3	45	1.32
3073712--3073756	22	2.1	21	84	12	56	64	4	2	28	1.25
3076721--3076771	20	2.5	20	87	0	66	35	43	9	11	1.75
3076779--3076828	18	2.7	18	81	3	55	14	22	24	40	1.90
3081285--3081319	13	2.8	13	91	4	54	37	0	14	48	1.44
3085041--3085094	28	2.0	28	82	13	69	37	5	9	48	1.59
3086432--3086480	18	2.7	18	78	9	55	32	0	12	55	1.37
3087489--3087679	62	3.1	62	80	7	217	33	13	18	34	1.90
3092277--3092315	17	2.3	17	100	0	78	43	15	5	35	1.69
3092567--3092614	20	2.4	20	86	6	62	29	12	0	58	1.35
3094367--3094436	34	2.1	32	89	5	104	21	31	15	31	1.95
3094786--3094886	41	2.5	40	95	1	175	15	27	39	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3094786--3094886	21	5.0	21	87	7	154	15	27	39	16	1.90
3096298--3096345	19	2.5	20	89	3	71	29	10	6	54	1.59
3099095--3099177	44	1.9	44	83	9	109	33	15	20	30	1.94
3099104--3099187	44	1.9	44	82	4	107	34	16	19	29	1.94
3100968--3101025	31	1.9	30	86	10	82	51	8	6	32	1.59
3103108--3103161	26	2.1	26	100	0	108	29	33	7	29	1.85
3103909--3103960	25	2.1	25	100	0	104	28	7	11	51	1.65
3104607--3104640	15	2.4	14	95	5	59	44	23	5	26	1.76
3106169--3106252	43	2.0	42	83	2	105	38	17	13	30	1.88
3106238--3106361	41	3.0	40	83	6	135	37	18	20	24	1.94
3106501--3106777	82	3.3	83	76	4	281	32	19	17	31	1.95
3107298--3107336	15	2.7	14	80	7	51	56	0	0	43	0.99
3107373--3107407	10	3.9	9	85	14	54	51	0	0	48	1.00
3108576--3108630	16	3.5	16	73	9	51	54	18	10	16	1.70
3110098--3110159	27	2.5	23	78	19	63	53	1	1	43	1.20
3110111--3110168	27	2.2	25	85	11	73	55	1	3	39	1.27
3111412--3111450	21	1.9	21	89	5	62	66	0	0	33	0.92
3115123--3115189	17	3.9	17	82	5	73	35	13	8	41	1.76
3116492--3116542	13	3.8	13	92	2	75	27	17	25	29	1.98
3116487--3116545	13	4.5	13	85	4	73	28	18	23	28	1.98
3119332--3119758	218	2.0	219	99	0	847	30	17	16	35	1.92
3122470--3122518	2	25.0	2	84	12	66	51	0	4	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3122470--3122518	13	3.8	13	89	2	73	51	0	4	44	1.20
3122473--3122519	15	3.1	15	82	14	60	53	0	4	42	1.20
3129387--3129431	7	6.7	7	82	10	58	40	28	15	15	1.88
3129376--3129431	26	2.1	27	93	3	96	41	26	17	14	1.88
3132466--3132657	96	2.0	96	97	0	366	38	8	11	41	1.73
3137112--3137195	17	4.9	17	85	0	96	41	5	15	36	1.72
3137112--3137178	34	2.0	34	90	0	107	43	4	16	35	1.68
3137788--3137831	22	1.9	23	86	9	63	20	11	6	61	1.52
3137798--3137843	22	2.1	21	84	11	58	21	13	6	58	1.57
3138045--3138080	3	12.0	3	100	0	72	33	0	0	66	0.92
3143093--3143126	16	2.1	16	89	10	52	14	8	0	76	1.01
3144017--3144118	47	2.2	47	89	0	150	30	19	20	29	1.97
3153789--3153826	20	1.9	20	94	0	67	36	5	23	34	1.78
3156353--3156391	2	20.0	2	94	5	71	48	0	0	51	1.00
3164397--3164440	3	14.3	3	85	4	61	61	0	2	36	1.09
3164695--3165408	110	6.5	112	85	7	862	27	18	14	38	1.90
3164695--3165408	324	2.2	332	83	8	908	27	18	14	38	1.90
3166201--3166356	75	2.0	78	96	3	291	38	21	14	25	1.91
3166137--3166459	178	1.8	180	96	1	605	36	21	13	27	1.92
3166277--3166463	103	1.8	102	96	1	347	35	20	13	29	1.92
3167612--3167692	7	12.1	7	77	12	82	1	16	0	82	0.73
3167612--3167689	8	9.5	8	82	9	95	1	15	0	83	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3167612--3167692	32	2.5	32	86	9	110	1	16	0	82	0.73
3178352--3178399	18	2.5	20	80	10	55	64	2	6	27	1.28
3179055--3179094	14	3.1	13	82	10	55	60	0	0	40	0.97
3180285--3180316	16	2.0	16	93	0	55	12	15	56	15	1.68
3180413--3180490	9	8.2	9	74	16	50	52	0	1	46	1.08
3180435--3180503	3	23.0	3	84	0	93	59	0	1	39	1.06
3182495--3182552	2	29.5	2	96	3	109	50	0	0	50	1.00
3185615--3185647	15	2.3	15	89	5	50	54	0	3	42	1.15
3185766--3185818	14	3.4	16	79	10	56	64	0	9	26	1.24
3185789--3185825	16	2.2	18	85	9	51	70	0	2	27	1.01
3187074--3187112	3	12.0	3	89	10	51	61	2	0	35	1.10
3187505--3187858	37	9.7	36	73	6	284	38	12	18	30	1.88
3187510--3187865	73	4.9	73	93	2	581	37	13	18	30	1.89
3187900--3188224	165	2.0	165	90	1	508	37	12	13	36	1.83
3188736--3188790	22	2.5	22	93	0	101	40	14	10	34	1.81
3192158--3192193	18	2.0	18	100	0	72	11	22	33	33	1.89
3192055--3192539	121	4.0	121	95	0	880	24	14	24	36	1.93
3192279--3192314	18	2.0	18	100	0	72	11	22	33	33	1.89
3192547--3192604	23	2.5	23	94	0	98	20	24	29	25	1.99
3196562--3196611	25	2.0	25	88	4	73	2	20	0	78	0.86
3196560--3196644	26	3.3	26	80	5	82	3	17	2	76	1.04
3196558--3196640	7	10.3	7	72	25	58	3	16	2	77	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3196599--3196677	26	3.0	26	96	0	140	5	16	10	68	1.36
3202329--3202361	15	2.3	15	89	5	50	54	0	3	42	1.15
3203813--3203877	3	21.0	3	81	9	69	58	1	1	38	1.17
3209083--3209109	13	2.1	13	100	0	54	37	14	25	22	1.93
3210547--3210627	38	2.1	38	86	0	108	22	39	13	24	1.90
3210877--3210931	18	3.0	18	82	17	53	63	0	32	3	1.12
3210879--3210927	22	2.3	21	80	13	55	65	0	30	4	1.11
3210918--3210951	12	2.7	13	86	4	52	70	0	26	2	1.01
3211169--3211213	18	2.4	19	81	3	56	44	2	4	48	1.35
3214300--3214338	20	2.0	20	90	10	62	53	20	7	17	1.68
3214399--3214527	59	2.2	59	80	2	143	28	24	17	30	1.97
3217163--3217228	6	10.7	6	78	13	55	1	18	1	78	0.90
3217164--3217227	21	3.0	21	84	13	85	1	18	1	78	0.92
3219969--3220010	20	2.1	20	90	0	66	50	23	9	16	1.75
3223647--3223722	24	3.0	24	72	20	66	3	28	0	67	1.09
3224304--3224349	17	2.7	17	80	6	58	71	0	13	15	1.14
3224608--3224642	8	4.4	8	92	0	52	48	11	0	40	1.39
3224615--3224687	2	40.0	2	73	17	61	54	2	1	41	1.23
3224615--3224687	14	5.1	15	78	18	68	54	2	1	41	1.23
3224630--3224693	19	3.3	20	85	12	82	59	0	1	39	1.07
3224615--3224688	21	3.5	20	75	17	62	55	2	1	40	1.22
3224686--3224724	20	2.0	20	85	10	53	69	0	7	23	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3226047--3226295	110	2.3	106	84	4	311	22	18	24	35	1.95
3227045--3227334	65	4.3	66	73	10	196	39	11	20	28	1.87
3227145--3227472	36	9.5	36	71	16	201	38	12	20	28	1.89
3227152--3227248	37	2.7	36	83	1	113	38	17	25	18	1.93
3227089--3227349	138	1.9	138	85	1	364	39	13	21	25	1.89
3227386--3227661	37	7.9	37	67	19	173	37	11	19	30	1.88
3227183--3227661	102	4.7	102	90	1	656	38	12	19	30	1.88
3229099--3229228	69	2.0	64	84	11	167	23	13	23	38	1.91
3229289--3229346	22	2.7	21	84	10	73	6	12	0	81	0.88
3229284--3229348	33	2.0	32	85	8	87	6	13	0	80	0.90

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