genome.fa.s9592.2.7.7.80.10.50.1000.15.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  15  of  39  ( 4673 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)
2994106--2994169	23	2.8	23	85	0	92	31	26	25	17	1.97
2995746--2995788	21	2.0	21	81	0	50	13	25	30	30	1.94
2999421--2999488	23	3.0	23	75	0	73	32	20	23	23	1.98
3007175--3007208	17	2.0	17	100	0	68	17	17	29	35	1.93
3021274--3021298	12	2.1	12	100	0	50	40	0	12	48	1.40
3021301--3021359	24	2.5	24	78	13	59	42	1	1	54	1.20
3024950--3025137	60	3.2	58	71	12	148	31	17	5	45	1.71
3032222--3032255	16	2.1	16	89	10	52	58	14	0	26	1.36
3035857--3035894	13	2.8	13	88	4	58	73	2	0	23	0.95
3037432--3037549	5	23.8	5	97	1	211	17	20	0	61	1.34
3046124--3046165	2	21.5	2	85	4	59	52	0	0	47	1.00
3047567--3047633	9	7.7	9	76	17	52	56	0	0	43	0.99
3047580--3047623	3	14.3	3	86	9	54	59	0	0	40	0.98
3047807--3049114	76	17.3	76	92	2	2145	35	21	18	24	1.96
3048975--3049105	66	2.0	64	95	2	235	34	22	19	22	1.97
3049742--3049818	22	3.5	22	89	0	118	40	15	11	32	1.84
3054495--3054531	19	2.1	18	90	10	58	0	21	0	78	0.75
3056373--3056400	12	2.3	12	100	0	56	53	7	14	25	1.66
3058892--3058957	2	34.5	2	88	8	102	48	1	0	50	1.10
3058892--3058981	36	2.5	36	83	7	94	48	2	2	46	1.26
3072927--3073096	88	1.9	88	93	2	297	37	11	5	45	1.64
3079684--3079856	90	1.9	89	94	1	301	38	11	5	43	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3082898--3082967	18	3.9	18	90	0	104	20	22	31	25	1.98
3085587--3085651	24	2.8	24	80	2	78	30	23	27	18	1.97
3085587--3085648	23	2.7	23	82	2	70	29	24	27	19	1.98
3085807--3085864	30	2.0	30	89	3	91	32	3	17	46	1.65
3085944--3086021	21	3.7	21	79	6	86	24	33	19	23	1.97
3085987--3086097	20	5.8	19	72	15	70	26	27	21	24	1.99
3086042--3086097	21	2.8	20	88	2	76	19	26	25	28	1.99
3086042--3086124	41	2.0	41	86	9	116	19	25	26	28	1.98
3086042--3086115	20	3.7	20	82	7	87	18	25	24	31	1.98
3089373--3089432	30	2.0	30	93	6	104	33	6	16	43	1.74
3089512--3089569	21	2.8	21	86	0	80	22	36	17	24	1.95
3089638--3089704	20	3.3	20	83	4	89	19	28	23	28	1.98
3089649--3089713	21	3.1	21	80	8	80	20	27	27	24	1.99
3090072--3090141	34	2.1	32	84	5	86	35	14	27	22	1.93
3101759--3101823	24	2.7	24	85	4	78	27	23	21	27	1.99
3115604--3115629	2	13.0	2	100	0	52	50	0	0	50	1.00
3118899--3118932	15	2.2	16	94	5	61	0	23	0	76	0.79
3119627--3119689	33	1.9	33	90	0	99	30	11	30	28	1.91
3125254--3125280	13	2.1	13	100	0	54	55	0	0	44	0.99
3125606--3125683	39	2.0	39	100	0	156	20	33	23	23	1.97
3128678--3128723	19	2.4	19	85	0	65	39	10	19	30	1.86
3128764--3128803	21	1.9	21	94	0	71	22	22	25	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3129613--3129668	22	2.5	22	85	0	76	25	26	19	28	1.99
3131414--3131509	29	3.3	29	80	1	111	30	6	21	41	1.78
3132216--3132276	24	2.5	24	81	0	77	29	14	16	39	1.88
3138083--3138130	22	2.2	21	89	7	78	20	47	20	10	1.79
3138132--3138268	29	4.7	29	74	6	96	32	5	21	40	1.75
3138212--3138342	28	4.6	29	75	8	115	34	2	22	40	1.67
3139043--3139122	24	3.3	24	82	0	79	25	13	18	42	1.87
3144551--3144579	13	2.1	14	93	6	51	24	24	31	20	1.98
3145638--3145680	19	2.2	20	84	15	56	13	13	0	72	1.13
3156719--3156769	25	2.0	25	96	0	93	39	17	13	29	1.88
3158738--3158828	23	3.9	23	72	2	74	47	10	10	30	1.73
3158760--3158801	12	3.6	12	80	3	50	54	7	9	28	1.59
3158860--3158948	41	2.2	40	78	9	94	58	13	7	20	1.60
3163121--3163189	28	2.5	28	95	2	122	40	17	8	33	1.80
3166532--3166625	43	2.2	43	96	0	170	18	27	23	30	1.97
3167864--3167905	21	2.0	21	100	0	84	19	19	23	38	1.93
3167926--3168149	68	3.3	65	80	9	218	48	5	2	42	1.41
3167929--3168115	67	2.8	69	80	14	219	48	4	2	43	1.38
3170445--3170478	13	2.5	14	85	9	52	52	0	5	41	1.25
3176092--3176124	2	16.5	2	93	0	57	48	0	0	51	1.00
3179844--3179903	30	2.0	30	100	0	120	43	6	16	33	1.74
3182301--3182327	4	6.8	4	100	0	54	74	0	0	25	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3185171--3185258	32	2.8	32	84	3	106	30	25	23	20	1.98
3185201--3185291	32	2.9	31	82	10	105	28	24	26	20	1.99
3186317--3186379	27	2.3	27	81	5	74	20	12	25	41	1.88
3187060--3187135	2	38.0	2	100	0	152	50	0	0	50	1.00
3187307--3187350	19	2.3	19	84	0	52	29	22	29	18	1.97
3187322--3187395	30	2.4	30	93	2	121	31	20	25	22	1.98
3190985--3191059	19	4.0	19	77	3	80	22	26	18	32	1.97
3192595--3192619	13	1.9	13	100	0	50	8	40	0	52	1.31
3193137--3193258	64	1.9	64	84	0	163	36	22	17	23	1.94
3193906--3193978	23	3.2	23	96	0	128	20	28	23	27	1.99
3194200--3194225	3	8.7	3	100	0	52	30	0	0	69	0.89
3200079--3200215	64	2.1	64	85	5	179	35	19	18	26	1.95
3204049--3204106	23	2.5	23	85	0	71	17	20	12	50	1.78
3205190--3205220	2	15.5	2	93	0	53	0	3	45	51	1.17
3211098--3211132	18	1.9	18	94	0	61	28	25	25	20	1.99
3213770--3213808	21	1.9	21	84	5	53	30	2	12	53	1.52
3218950--3219028	40	2.0	40	92	0	131	43	21	8	26	1.82
3219123--3219147	11	2.3	11	100	0	50	60	0	0	40	0.97
3219952--3219985	12	2.8	12	90	0	50	35	0	0	64	0.94
3224085--3224146	21	3.0	21	92	0	106	16	22	17	43	1.87
3224140--3224189	20	2.5	20	80	0	64	38	22	16	24	1.93
3224180--3224224	20	2.2	20	96	0	81	44	24	11	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3224397--3224440	22	2.1	21	91	8	72	22	40	13	22	1.89
3224771--3224811	20	2.0	20	90	0	64	51	17	19	12	1.76
3224813--3224851	19	2.0	20	95	5	71	12	15	25	46	1.81
3226522--3226571	21	2.4	21	82	0	64	26	10	28	36	1.88
3226588--3226725	21	6.6	21	79	12	63	20	13	31	34	1.91
3226603--3226722	42	2.9	42	82	2	125	20	13	30	36	1.90
3226646--3226725	42	1.9	42	97	0	151	20	13	28	37	1.91
3226649--3226738	42	2.1	42	89	0	135	18	16	30	34	1.94
3227018--3227078	21	3.0	20	79	13	70	26	26	18	29	1.98
3227068--3227137	21	3.3	21	77	0	77	22	35	18	22	1.95
3227979--3228022	23	2.0	23	81	4	54	50	11	2	36	1.51
3233804--3233841	20	1.9	20	88	0	58	26	34	26	13	1.93
3237889--3237922	14	2.4	14	100	0	68	32	0	20	47	1.51
3237870--3238061	78	2.5	78	92	0	312	29	2	17	51	1.56
3237964--3238000	14	2.6	14	95	0	65	27	0	24	48	1.51
3237878--3238016	41	3.5	41	68	21	123	31	0	18	48	1.53
3238195--3238251	29	2.0	29	96	0	105	31	26	15	26	1.96
3240742--3240793	24	2.2	24	82	0	59	36	17	19	26	1.94
3240904--3240937	12	2.8	12	90	0	50	17	0	26	55	1.42
3241780--3241939	20	7.9	20	72	10	85	30	14	25	30	1.95
3241728--3241847	40	3.0	38	78	8	114	33	12	24	30	1.92
3241780--3241869	41	2.2	41	80	9	103	33	16	23	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3241832--3241871	21	2.0	21	90	5	64	40	17	22	20	1.92
3242834--3242896	21	2.9	21	83	9	65	30	4	4	60	1.38
3245032--3245059	11	2.5	11	100	0	56	35	7	0	57	1.26
3247782--3247941	18	8.9	18	87	0	230	25	32	24	18	1.97
3248711--3248768	20	2.6	22	89	10	84	25	22	20	31	1.98
3250130--3250169	20	2.1	19	90	4	62	20	17	0	62	1.33
3251292--3251373	28	3.1	28	61	25	70	40	23	6	30	1.79
3251291--3251390	50	2.0	50	100	0	200	40	22	6	32	1.78
3252116--3252273	18	8.9	18	85	2	221	25	32	24	18	1.97
3253006--3253061	20	2.6	22	89	10	82	26	23	19	30	1.98

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