genome.fa.s190.2.7.7.80.10.50.1000.14.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  14  of  62  ( 7381 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)
3225971--3226042	29	2.5	29	90	0	108	38	11	12	37	1.79
3226055--3226132	30	2.6	29	80	8	84	34	8	20	35	1.84
3226335--3226401	22	3.0	22	100	0	134	19	26	26	26	1.99
3232442--3232484	21	2.0	21	86	0	59	30	27	25	16	1.97
3232464--3232618	69	2.2	69	87	4	215	30	26	28	14	1.95
3232921--3232992	29	2.5	29	90	0	108	38	11	12	37	1.79
3233006--3233083	30	2.6	29	80	8	84	34	8	20	35	1.84
3233286--3233352	22	3.0	22	100	0	134	19	26	26	26	1.99
3237852--3237898	19	2.5	19	83	10	62	27	17	29	25	1.97
3240544--3240624	24	3.6	23	75	14	87	28	22	25	23	1.99
3241549--3241601	27	2.0	27	100	0	106	37	15	11	35	1.83
3244674--3244720	19	2.5	19	83	10	62	27	17	29	25	1.97
3244627--3244771	64	2.3	63	83	11	179	29	16	26	27	1.97
3244941--3244976	12	3.0	12	100	0	72	41	8	8	41	1.65
3254720--3254970	30	8.5	30	77	6	172	24	7	39	27	1.82
3254771--3254889	57	2.1	57	82	0	139	26	7	40	25	1.82
3254739--3254955	117	1.9	117	80	1	256	25	7	40	26	1.82
3254777--3255011	87	2.7	87	85	7	282	25	8	39	27	1.84
3254828--3255015	90	2.1	88	88	4	281	24	6	40	27	1.80
3255100--3255257	78	2.0	78	95	0	280	24	11	36	27	1.90
3255550--3255578	12	2.5	12	94	5	51	44	0	6	48	1.29
3264562--3264628	33	2.0	33	100	0	134	52	14	8	23	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3282139--3282234	47	2.0	47	92	4	158	30	19	23	26	1.98
3283439--3283476	20	1.9	20	88	0	58	34	23	7	34	1.84
3283525--3283576	20	2.6	20	81	6	61	23	17	13	46	1.83
3291375--3291423	15	3.5	15	70	16	50	34	6	0	59	1.22
3291375--3291437	27	2.4	26	89	5	99	38	4	1	55	1.31
3293472--3293524	20	2.6	21	78	6	63	52	0	0	47	1.00
3296084--3296231	41	3.6	40	77	12	133	33	17	21	27	1.96
3297258--3297445	57	3.3	57	99	0	367	29	5	13	51	1.64
3297708--3297824	43	2.8	43	81	14	138	21	23	23	31	1.98
3298131--3298254	43	2.9	43	77	1	113	37	23	16	22	1.94
3298180--3298284	43	2.4	44	84	3	124	32	22	19	25	1.97
3298278--3298413	43	3.2	43	89	2	211	26	25	16	31	1.96
3298206--3298413	86	2.4	86	80	4	224	30	25	15	27	1.96
3299608--3299647	20	2.0	20	100	0	80	25	35	20	20	1.96
3300251--3300300	18	2.7	19	78	3	66	18	4	0	78	0.91
3312697--3312725	15	1.9	15	100	0	58	20	17	27	34	1.95
3323476--3323568	42	2.2	42	92	0	150	25	20	21	32	1.98
3323628--3323703	22	3.5	22	67	13	59	26	21	23	28	1.99
3323749--3323823	22	3.5	21	67	15	55	25	18	22	33	1.97
3323742--3323825	42	2.0	42	92	0	141	25	20	23	30	1.98
3323625--3323825	42	4.9	42	69	11	137	28	19	23	28	1.98
3323487--3323901	122	3.3	122	86	4	533	30	18	21	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3323784--3323996	80	2.7	80	95	0	381	29	17	21	30	1.96
3324409--3324788	53	7.2	53	87	0	537	31	21	26	19	1.98
3338984--3339146	4	40.8	4	100	0	326	50	24	0	25	1.50
3342470--3342512	21	2.0	21	81	0	50	25	23	23	27	2.00
3343128--3343171	19	2.3	19	92	0	70	27	18	27	27	1.98
3344256--3344302	23	2.0	23	100	0	94	21	34	4	40	1.73
3346013--3346091	39	2.0	39	100	0	158	30	21	10	37	1.86
3349526--3349583	19	2.9	20	85	10	66	20	24	36	18	1.95
3349527--3349583	21	2.8	20	79	15	62	19	24	36	19	1.94
3350209--3350242	17	2.0	17	88	0	50	52	29	2	14	1.56
3352165--3352201	19	1.9	19	88	0	56	10	27	37	24	1.88
3355927--3355966	21	1.9	21	85	10	55	35	7	2	55	1.42
3365830--3365903	2	38.5	2	92	8	127	50	0	0	50	1.00
3365830--3365903	27	2.7	27	93	6	123	50	0	0	50	1.00
3369582--3369650	21	3.3	21	85	0	102	27	17	24	30	1.97
3371210--3371299	39	2.4	37	78	15	94	63	6	0	30	1.20
3371811--3371848	16	2.4	17	82	13	53	36	13	21	28	1.91
3372783--3373638	182	4.7	182	86	3	1079	27	14	12	44	1.82
3379218--3379364	74	2.0	74	88	5	217	32	6	5	55	1.49
3383999--3384079	25	3.2	25	68	16	76	43	11	14	30	1.81
3384000--3384100	51	2.0	51	94	0	175	42	8	14	33	1.77
3384011--3384090	25	3.2	24	66	22	56	42	8	16	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3388767--3388907	51	2.8	51	83	5	178	43	7	13	36	1.71
3399176--3399256	32	2.5	32	84	4	101	34	4	20	39	1.75
3400118--3400194	16	4.8	17	77	7	72	48	24	11	15	1.79
3400961--3401027	30	2.2	31	79	12	77	31	4	4	59	1.37
3402086--3402142	24	2.4	24	100	0	114	40	3	0	56	1.17
3402086--3402151	24	2.7	24	92	2	96	42	6	1	50	1.36
3403011--3403055	20	2.2	20	92	0	72	35	11	24	28	1.90
3403203--3403257	21	2.6	21	88	2	83	16	23	25	34	1.95
3403585--3403637	21	2.5	21	81	6	63	22	26	18	32	1.97
3403623--3403772	20	7.5	20	84	4	171	35	18	18	28	1.94
3403623--3403757	41	3.4	40	82	5	166	34	19	19	26	1.95
3404629--3404679	24	2.1	24	85	0	66	25	17	19	37	1.94
3406392--3406451	24	2.5	24	83	0	84	38	18	18	25	1.93
3406699--3406753	19	2.8	20	83	2	67	38	21	21	18	1.94
3406501--3407039	274	2.0	274	96	0	997	30	14	18	35	1.91
3407000--3407093	33	2.8	33	95	0	161	45	19	22	12	1.83
3407000--3407097	19	5.7	18	70	24	77	45	19	22	12	1.83
3407093--3407167	19	4.2	19	77	16	63	13	18	24	44	1.85
3407124--3407168	19	2.4	19	96	0	81	13	20	20	46	1.83
3407133--3407176	19	2.3	19	88	0	61	15	20	18	45	1.85
3407275--3407311	14	2.6	14	91	0	65	45	21	0	32	1.52
3409180--3409306	19	6.8	19	76	12	120	46	19	22	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3409204--3409303	33	2.8	35	85	8	114	46	20	23	11	1.82
3409312--3409349	20	1.9	20	94	0	67	7	15	26	50	1.72
3409352--3409388	19	1.9	19	88	0	56	8	24	21	45	1.78
3409479--3409852	94	4.1	94	91	2	573	47	18	12	21	1.81
3411545--3411656	19	6.1	19	78	12	126	48	17	21	12	1.80
3411679--3411754	20	3.8	20	80	5	91	11	15	18	53	1.71
3412305--3412398	20	4.7	20	81	2	116	19	20	20	40	1.92
3412305--3412398	41	2.3	40	88	1	134	19	20	20	40	1.92
3412395--3412435	21	2.0	21	90	0	64	39	17	26	17	1.91
3415079--3415120	20	2.1	19	86	13	57	47	7	2	42	1.43
3415724--3415797	29	2.5	28	89	8	96	43	4	4	48	1.40
3415749--3415797	16	3.2	16	66	16	50	42	2	4	51	1.32
3424109--3424155	21	2.2	21	100	0	94	23	23	14	38	1.92
3451192--3451317	48	2.6	48	91	1	207	24	15	25	34	1.94
3454024--3454062	20	2.0	20	84	0	51	35	23	10	30	1.88
3459188--3459240	21	2.5	21	81	6	72	20	26	18	33	1.96
3459230--3459278	21	2.4	20	79	3	53	40	16	20	22	1.91
3459270--3459384	20	5.7	20	81	6	115	33	25	18	22	1.96
3459267--3459404	41	3.4	41	81	6	163	36	23	17	22	1.95
3459571--3459614	22	2.0	22	95	0	79	25	43	13	18	1.86
3459863--3459921	20	3.0	20	87	0	73	15	18	22	44	1.87
3460059--3460113	25	2.2	24	78	15	58	20	9	18	52	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3461243--3461290	18	2.7	18	93	0	87	27	45	12	14	1.81
3461850--3461908	14	3.9	14	76	20	64	10	16	23	49	1.77
3461834--3461919	33	2.6	33	98	0	163	11	18	20	48	1.79
3461922--3461983	20	3.1	20	90	0	97	16	24	25	33	1.95
3462331--3462386	21	2.7	20	72	8	58	25	39	14	21	1.91
3462331--3462419	42	2.1	42	85	4	117	22	40	14	22	1.90
3463827--3463865	14	2.8	14	84	0	51	35	0	17	46	1.49
3463982--3464049	19	3.8	19	83	14	92	48	17	20	13	1.80
3464068--3464143	20	3.8	20	91	0	116	15	21	22	40	1.90
3464694--3464781	20	4.4	20	95	0	149	26	20	29	23	1.99

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62