genome.fa.s7923.2.7.7.80.10.50.1000.15.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   

This is table  15  of  40  ( 4704 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)
3006977--3007075	21	4.8	21	78	2	101	25	22	19	33	1.97
3006977--3007054	41	1.9	41	89	0	120	26	19	19	34	1.95
3007112--3007169	21	2.7	21	94	2	98	17	18	29	34	1.94
3012819--3012869	17	2.9	18	75	13	52	47	9	19	23	1.79
3012817--3012930	18	6.4	18	66	14	67	41	11	19	28	1.86
3012900--3012960	18	3.7	18	72	20	69	44	16	14	24	1.85
3012846--3012954	35	3.2	33	77	12	91	38	12	20	28	1.89
3017854--3017980	60	2.1	60	82	2	157	35	16	14	33	1.90
3020242--3020321	20	3.8	22	71	12	69	30	13	5	51	1.63
3020241--3020301	23	2.8	22	73	9	63	32	14	3	49	1.60
3020293--3020340	19	2.5	20	89	3	71	31	12	6	50	1.65
3028358--3028395	19	2.0	19	100	0	76	52	5	0	42	1.24
3028567--3028726	54	2.9	57	87	6	222	19	8	13	58	1.60
3061342--3061626	140	2.0	141	97	1	536	27	11	22	38	1.88
3069250--3069312	29	2.1	31	82	5	76	47	4	19	28	1.69
3069762--3069795	15	2.2	16	94	5	61	47	5	0	47	1.26
3071536--3071657	47	2.7	45	85	7	158	37	7	22	31	1.82
3075505--3075542	17	2.2	18	86	13	53	63	28	5	2	1.30
3079850--3079888	20	1.9	21	89	5	62	35	17	15	30	1.91
3080599--3080648	25	2.0	25	96	0	91	34	16	12	38	1.85
3086922--3086994	24	3.0	24	83	0	92	43	15	26	15	1.85
3088133--3088216	19	4.4	19	78	0	78	28	17	9	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3088649--3088690	20	2.0	21	86	9	59	33	2	35	28	1.70
3092919--3093006	12	7.0	12	70	21	56	77	2	17	3	1.01
3092942--3092966	10	2.5	10	100	0	50	72	0	28	0	0.86
3092919--3092994	26	3.1	25	82	14	79	76	2	18	2	1.02
3092922--3093021	21	4.9	20	71	23	75	77	2	18	3	1.00
3092916--3093022	15	7.1	15	74	16	80	76	1	18	2	1.00
3092928--3093026	27	3.6	27	72	21	80	76	2	17	4	1.03
3093996--3094364	138	2.7	139	86	0	524	29	29	16	24	1.97
3094617--3094713	3	31.7	3	81	8	115	34	0	4	61	1.15
3099939--3100206	113	2.3	116	89	8	391	39	4	7	48	1.50
3103352--3103399	3	15.7	3	83	12	62	62	0	0	37	0.95
3103349--3103388	19	2.1	19	95	0	71	60	0	0	40	0.97
3103538--3104023	76	6.4	76	96	0	873	34	22	19	23	1.96
3104026--3104352	170	2.0	164	89	4	494	38	12	13	35	1.83
3104853--3104907	22	2.5	22	93	0	92	43	12	9	34	1.74
3105274--3105431	54	3.0	54	83	6	191	26	21	14	37	1.92
3106303--3106477	76	2.3	74	83	3	206	30	22	16	30	1.96
3106594--3106667	36	2.1	34	82	9	87	31	21	14	32	1.94
3107624--3107847	114	2.0	114	92	0	376	29	20	16	33	1.94
3110107--3110187	8	10.0	8	74	12	76	2	16	0	81	0.80
3110107--3110191	9	9.2	9	74	20	61	2	16	0	81	0.80
3110109--3110178	15	4.7	15	84	5	88	2	15	0	81	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3110107--3110195	31	2.8	31	79	17	110	2	16	0	80	0.80
3112804--3112843	21	1.9	21	89	0	62	60	12	10	17	1.59
3113139--3113893	375	2.0	375	98	0	1465	24	18	15	41	1.89
3116399--3116428	4	7.2	4	96	3	51	76	0	0	23	0.78
3117841--3117885	3	14.7	3	82	13	56	62	0	0	37	0.96
3121607--3121688	21	3.9	21	88	0	119	48	13	36	1	1.50
3121608--3121668	12	5.6	12	67	21	53	50	13	36	0	1.41
3122805--3122902	48	2.0	48	98	0	187	30	12	7	50	1.67
3122818--3122896	26	3.2	26	63	26	71	27	13	7	50	1.69
3122886--3123310	113	3.5	122	83	9	561	38	4	7	49	1.49
3126449--3126478	12	2.5	12	100	0	60	20	16	26	36	1.93
3128354--3128401	13	3.7	13	88	0	69	37	14	20	27	1.92
3139288--3139322	15	2.3	15	95	0	61	37	31	11	20	1.88
3139992--3140242	117	2.1	117	86	0	367	16	32	19	31	1.94
3140011--3140320	117	2.6	116	84	4	347	16	30	20	32	1.94
3143296--3143418	5	24.6	5	100	0	246	60	0	0	39	0.97
3144847--3144907	31	2.0	31	93	3	106	32	8	18	40	1.80
3144987--3145086	21	4.7	21	83	11	123	22	36	20	22	1.96
3145251--3145290	20	1.9	22	90	10	66	37	35	10	17	1.83
3145506--3145574	34	2.1	32	83	5	84	31	15	27	24	1.96
3147730--3147790	31	2.0	31	96	3	115	32	6	18	42	1.76
3147870--3147948	20	3.8	20	76	17	70	22	36	20	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3149311--3149360	21	2.4	21	82	0	64	26	4	18	52	1.63
3151293--3151352	19	3.2	19	85	4	77	51	6	38	3	1.45
3154825--3155036	22	9.6	22	89	1	316	40	0	9	49	1.39
3154825--3155036	89	2.4	88	91	0	334	40	0	9	49	1.39
3155060--3155118	31	1.9	31	89	0	91	45	6	5	42	1.52
3157039--3157103	31	2.1	32	88	2	96	29	24	10	35	1.89
3161830--3161902	37	1.9	39	88	5	114	31	12	13	42	1.81
3164764--3164859	41	2.3	42	80	8	108	31	18	18	31	1.95
3166790--3168343	776	2.0	776	97	0	2946	34	16	17	31	1.92
3171023--3171087	29	2.2	31	77	5	71	33	0	9	56	1.31
3173811--3173893	31	2.7	31	90	0	103	25	20	38	15	1.92
3173811--3173881	31	2.3	31	97	0	133	25	21	36	16	1.94
3174199--3174260	11	5.5	11	83	9	81	59	1	37	1	1.17
3177098--3177194	11	8.4	11	73	20	65	44	11	3	41	1.56
3177097--3177147	24	2.2	22	89	6	75	45	5	1	47	1.38
3177129--3177201	33	2.2	33	85	2	103	46	13	2	36	1.58
3180267--3180329	28	2.2	30	91	5	103	55	14	0	30	1.39
3180293--3180346	21	2.7	20	77	8	56	55	14	0	29	1.40
3180360--3180408	15	3.4	15	78	15	50	0	36	2	61	1.08
3180698--3180760	32	2.1	29	78	16	67	31	15	12	39	1.85
3183368--3183415	23	2.2	23	85	14	66	35	12	0	52	1.40
3184618--3184669	26	1.9	28	84	7	72	61	3	3	30	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3187656--3187714	24	2.4	25	82	5	75	54	0	5	40	1.23
3188027--3188064	20	2.0	20	89	5	60	42	5	2	50	1.39
3192383--3192416	14	2.4	14	90	0	50	8	35	32	23	1.86
3194589--3194635	21	2.2	21	96	0	85	27	34	17	21	1.95
3194650--3194765	21	5.6	21	69	11	87	22	18	23	35	1.96
3194654--3194777	42	3.0	42	86	2	180	24	18	20	36	1.95
3195572--3195687	36	2.9	42	77	15	136	39	22	17	20	1.92
3195663--3195716	24	2.3	24	90	3	92	37	18	25	18	1.94
3197110--3197142	2	16.5	2	100	0	66	51	0	0	48	1.00
3198000--3198024	13	1.9	13	100	0	50	72	8	0	20	1.10
3199142--3199197	3	19.3	3	78	14	64	41	0	0	58	0.98
3200601--3200661	3	21.3	3	77	12	58	26	4	0	68	1.09
3200601--3200663	13	4.8	12	75	22	56	25	4	0	69	1.07
3200708--3200972	139	1.9	138	85	4	363	39	8	8	44	1.65
3200920--3200977	29	2.0	28	81	15	66	51	1	1	44	1.21
3201489--3201547	21	3.0	20	71	21	52	30	1	1	66	1.12
3209675--3209741	35	1.9	35	85	11	93	31	11	23	32	1.91
3211263--3211339	22	3.5	22	96	0	145	33	11	14	40	1.82
3212021--3212730	76	9.3	76	96	0	1258	24	19	21	34	1.96
3214253--3214320	3	23.3	3	78	11	70	25	2	0	72	0.99
3214333--3214362	2	15.0	2	92	0	51	53	0	0	46	1.00
3214324--3214621	138	2.2	135	77	12	302	38	8	8	45	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3214379--3214642	138	1.9	137	82	6	327	38	8	8	44	1.66
3215338--3215371	17	2.0	17	94	0	59	35	14	5	44	1.70
3216555--3216698	36	3.8	36	73	18	137	38	19	24	18	1.93
3216595--3216682	45	2.0	45	84	4	115	38	19	25	17	1.92
3216876--3216909	17	2.0	17	94	0	59	35	14	5	44	1.70
3218914--3219151	29	7.8	31	68	17	88	53	2	5	38	1.37
3218941--3219007	29	2.3	29	86	0	89	58	2	1	37	1.23
3219371--3219420	20	2.5	20	93	0	91	58	2	0	40	1.10
3223068--3223170	54	1.9	54	89	0	161	40	10	27	21	1.86
3228110--3228160	19	2.7	19	90	3	77	35	15	0	49	1.45

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40