genome.fa.s1547.2.7.7.80.10.50.1000.15.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  15  of  51  ( 6083 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)
3013637--3013726	28	3.2	27	74	20	85	56	1	0	42	1.06
3013714--3013797	28	3.0	28	78	14	84	46	1	1	51	1.16
3013764--3013807	22	2.0	23	86	4	63	54	0	0	45	0.99
3013787--3013839	12	4.7	12	73	20	51	50	0	0	49	1.00
3013768--3013839	23	3.2	21	81	13	65	52	0	0	47	1.00
3013791--3013841	21	2.3	23	86	10	70	49	0	0	50	1.00
3013614--3013831	64	3.4	64	68	20	150	50	1	0	47	1.15
3013942--3014102	74	2.2	75	94	1	279	44	13	16	25	1.84
3014651--3014693	21	2.0	21	95	0	77	51	4	39	4	1.44
3022234--3022258	4	6.2	4	100	0	50	0	76	0	24	0.80
3026102--3026145	18	2.4	18	81	7	54	65	2	0	31	1.05
3035246--3035299	23	2.3	23	96	0	99	33	20	12	33	1.91
3038319--3038385	24	2.8	25	81	6	75	19	11	16	52	1.74
3038355--3038413	19	3.0	20	69	18	61	27	5	18	49	1.68
3038372--3038398	14	1.9	14	100	0	54	37	3	14	44	1.63
3038346--3038424	38	2.1	38	87	0	113	24	7	16	51	1.70
3045705--3045785	31	2.6	31	78	2	81	12	25	33	28	1.92
3048166--3048205	16	2.5	16	84	8	55	52	0	0	47	1.00
3050263--3050327	30	2.3	27	76	10	67	46	3	1	49	1.27
3050380--3050441	21	2.7	23	73	24	60	40	1	4	53	1.32
3050556--3050657	22	4.5	22	74	9	73	44	0	3	50	1.27
3050539--3050608	25	2.8	25	78	6	63	47	0	2	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3050713--3050767	14	3.9	14	84	11	60	56	1	0	41	1.10
3050733--3050806	28	2.6	29	71	14	73	52	1	0	45	1.09
3050768--3050808	22	1.9	21	85	5	55	46	0	0	53	1.00
3052107--3052132	2	13.0	2	100	0	52	50	0	0	50	1.00
3054624--3054972	171	2.0	174	97	2	668	35	10	7	46	1.67
3055393--3055423	7	4.4	7	91	0	53	0	67	0	32	0.91
3055382--3055423	14	3.2	14	87	9	54	0	66	0	33	0.92
3056583--3056678	29	3.1	31	71	17	83	37	3	22	36	1.70
3056547--3056678	60	2.2	61	82	6	162	37	4	25	33	1.76
3056568--3056715	60	2.5	61	79	6	158	41	5	20	33	1.75
3060159--3060227	3	21.3	3	94	2	84	37	1	0	60	1.06
3061908--3061939	2	16.0	2	93	0	55	46	0	3	50	1.17
3064449--3064904	227	2.0	227	97	2	862	33	15	12	38	1.85
3067897--3068006	54	2.0	55	82	3	132	29	7	19	44	1.77
3068710--3069063	140	2.6	134	84	7	403	37	16	19	25	1.93
3069079--3069175	41	2.3	42	84	5	126	32	20	18	27	1.96
3069376--3069410	3	11.3	3	93	6	61	34	0	0	65	0.93
3071069--3071108	2	20.5	2	89	5	64	47	2	0	50	1.14
3072989--3073025	14	2.4	17	86	13	53	35	0	27	37	1.57
3076320--3076381	28	2.2	28	100	0	124	24	6	14	54	1.63
3078379--3078516	69	2.0	69	100	0	276	23	21	28	26	1.99
3083378--3083417	17	2.3	18	86	4	55	27	10	12	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3090776--3090815	16	2.4	17	87	4	55	80	2	10	7	1.00
3091990--3092159	78	2.3	75	88	6	247	34	17	21	27	1.96
3092369--3092394	3	8.7	3	100	0	52	34	0	0	65	0.93
3094384--3094416	2	16.5	2	100	0	66	51	0	0	48	1.00
3094774--3095238	255	1.8	255	89	2	729	32	18	12	36	1.89
3100563--3100766	76	2.7	75	82	7	245	28	15	14	41	1.86
3100747--3101299	78	7.5	78	82	8	493	28	19	15	36	1.92
3100757--3101263	117	4.6	116	81	8	414	28	20	15	36	1.93
3100743--3101299	36	15.1	36	84	4	509	28	19	15	36	1.92
3100905--3101371	246	1.9	250	87	3	692	27	21	14	37	1.92
3101343--3101400	28	2.0	29	96	3	109	29	13	17	39	1.88
3101402--3101544	76	1.9	76	89	2	225	27	21	13	37	1.91
3101824--3102299	131	3.6	136	86	4	643	33	17	21	26	1.96
3102443--3102507	20	3.3	20	67	18	55	44	12	20	23	1.84
3106185--3106218	10	3.5	10	84	8	52	14	0	2	82	0.79
3111957--3112011	21	2.6	21	82	5	67	38	3	0	58	1.16
3116695--3116720	2	13.0	2	100	0	52	50	0	0	50	1.00
3116867--3116929	30	2.1	30	96	0	117	22	3	34	39	1.70
3117318--3117408	2	47.0	2	69	22	52	48	2	5	43	1.38
3117308--3117403	32	3.1	32	84	3	106	50	3	5	41	1.40
3117310--3117357	25	1.9	25	87	8	71	56	2	0	41	1.11
3118150--3118182	16	1.9	18	88	11	52	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3133454--3133501	20	2.4	20	96	0	87	47	20	4	27	1.68
3133726--3134063	167	2.0	167	97	0	633	31	19	14	34	1.92
3136098--3136198	22	4.5	22	82	3	103	38	21	22	16	1.93
3136187--3136247	19	3.2	19	90	0	86	27	18	34	19	1.95
3140326--3140411	23	3.2	28	69	17	83	36	2	1	60	1.17
3145358--3145398	21	2.0	21	95	0	73	31	24	12	31	1.92
3145536--3145586	21	2.4	21	93	0	84	29	23	9	37	1.87
3145972--3146094	53	2.3	53	88	1	174	29	22	19	28	1.98
3147670--3147694	3	8.3	3	100	0	50	68	32	0	0	0.90
3147909--3147947	14	2.8	14	84	0	51	35	28	12	23	1.91
3154236--3154378	21	6.7	21	82	10	175	30	27	19	22	1.98
3154512--3154558	21	2.2	21	85	7	60	29	23	12	34	1.92
3154947--3155070	52	2.3	54	82	6	155	27	24	20	28	1.99
3156000--3156107	56	2.0	55	81	5	130	37	15	12	35	1.85
3168886--3168955	33	2.2	33	82	9	85	45	0	5	48	1.26
3168997--3169047	23	2.2	23	82	0	57	45	1	1	50	1.24
3169052--3169117	28	2.4	28	76	16	66	51	3	1	43	1.26
3169141--3169208	8	8.6	8	73	15	52	44	0	1	54	1.09
3169107--3169240	26	5.4	25	69	21	77	48	0	0	50	1.11
3169141--3169224	32	2.6	32	87	9	109	47	0	1	51	1.08
3169402--3169538	61	2.2	61	94	0	238	37	23	13	25	1.91
3169501--3169636	42	3.2	42	80	2	155	50	16	13	19	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3172999--3173027	2	14.5	2	100	0	58	48	0	0	51	1.00
3178189--3178224	17	2.1	18	90	10	58	52	0	0	47	1.00
3178788--3178827	17	2.2	19	86	8	57	35	0	0	65	0.93
3183264--3183310	24	2.0	24	100	0	94	31	12	12	42	1.81
3190313--3190359	2	23.5	2	100	0	94	51	0	0	48	1.00
3191816--3191866	26	2.0	26	92	0	84	47	0	11	41	1.40
3197743--3197773	6	5.2	6	92	0	53	51	0	35	12	1.40
3197740--3197773	12	2.8	12	90	0	59	50	0	38	11	1.39
3208849--3208901	26	2.0	26	96	0	97	37	7	24	30	1.83
3209144--3209260	28	4.1	28	82	3	153	42	29	5	22	1.75
3210017--3210084	21	3.2	21	79	12	77	20	35	25	19	1.96
3213495--3213570	25	3.0	25	81	12	77	28	22	23	25	1.99
3213525--3213594	24	2.8	25	85	8	90	31	24	24	20	1.98
3215138--3215221	21	4.0	21	92	1	132	17	25	26	30	1.97
3216114--3216155	17	2.5	17	80	3	50	40	21	0	38	1.53
3218481--3218556	25	3.0	25	86	7	102	26	23	26	23	2.00
3218497--3218569	24	3.0	24	86	13	96	26	24	27	21	2.00
3218528--3218577	24	2.1	24	92	0	82	32	24	24	20	1.98
3220131--3220214	21	4.0	21	92	1	123	17	26	26	29	1.98
3223488--3223706	31	7.0	31	93	1	350	38	21	18	21	1.93
3224662--3224706	21	2.1	21	87	0	63	15	24	28	31	1.96
3226396--3226459	23	2.8	23	85	4	67	21	29	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3226407--3226459	23	2.2	24	86	6	81	18	33	20	26	1.96
3228202--3228235	16	2.1	16	100	0	68	23	0	17	58	1.38
3229408--3229451	16	2.8	16	82	6	54	56	18	6	18	1.62
3230128--3230225	13	7.5	13	77	8	101	47	13	11	27	1.76
3230128--3230240	26	4.3	26	85	4	147	47	11	12	28	1.76
3230131--3230238	39	2.8	39	75	10	103	47	11	12	28	1.76
3232139--3232241	30	3.4	30	87	2	154	18	18	18	44	1.87
3232139--3232264	30	4.2	30	85	4	148	18	18	19	44	1.87
3232139--3232264	60	2.1	60	86	5	175	18	18	19	44	1.87
3232120--3232264	15	9.7	15	65	15	68	18	17	17	45	1.86

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