genome.fa.s8654.2.7.7.80.10.50.1000.15.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  15  of  18  ( 2052 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)
2978047--2979370	397	3.3	397	90	2	1996	30	15	14	40	1.86
2980851--2980908	24	2.4	24	77	13	73	51	13	3	31	1.58
2982722--2982751	15	1.9	16	93	6	53	36	0	36	26	1.57
2983044--2983805	198	3.8	198	85	4	955	31	14	14	40	1.86
2986658--2986754	51	1.9	51	100	0	194	35	25	3	36	1.72
2986983--2987825	199	4.2	199	87	2	1201	32	15	13	37	1.87
2986986--2987825	399	2.1	399	91	1	1353	32	15	13	37	1.87
2988591--2989018	51	7.9	51	76	15	374	35	22	4	36	1.76
2988590--2989097	117	4.5	106	83	9	529	36	22	5	35	1.77
2988810--2989097	114	2.5	114	88	3	425	36	23	5	35	1.77
2991045--2991087	15	2.9	15	92	0	68	11	55	6	25	1.60
2993263--2994098	183	4.6	183	91	1	1261	25	15	14	44	1.85
2995307--2995344	19	2.0	19	89	0	58	47	2	0	50	1.15
2996710--2996743	16	2.1	16	88	0	50	38	0	0	61	0.96
2999431--2999511	29	2.9	27	78	7	72	20	9	8	60	1.55
2999607--2999644	18	2.1	19	90	5	60	15	7	7	68	1.37
3003839--3003878	19	2.1	19	90	0	62	22	15	2	60	1.47
3003850--3003888	19	1.9	19	85	10	51	28	10	0	61	1.28
3005375--3005456	9	9.2	8	81	13	56	81	1	10	6	0.91
3005387--3005430	13	3.3	14	90	6	65	86	0	13	0	0.57
3005375--3005433	22	2.7	21	87	7	82	84	1	13	0	0.69
3005375--3005433	14	4.3	13	85	10	73	84	1	13	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3007616--3007671	17	3.1	18	80	19	71	73	0	14	12	1.11
3007608--3007674	8	7.9	8	84	15	82	74	0	13	11	1.07
3007618--3007674	9	6.3	9	84	11	73	75	0	12	12	1.05
3007646--3007694	16	3.4	14	76	17	55	81	2	8	8	0.94
3008530--3008578	22	2.2	22	96	0	89	38	14	18	28	1.90
3009615--3009707	36	2.6	36	87	1	123	41	19	19	19	1.90
3009593--3009707	37	3.1	37	83	2	151	40	20	18	20	1.91
3009713--3010149	112	3.9	111	82	5	513	31	26	14	27	1.95
3009714--3010149	115	3.9	111	82	4	511	31	26	14	27	1.95
3009713--3010149	227	1.9	225	86	4	621	31	26	14	27	1.95
3010051--3010351	136	2.2	137	87	1	435	30	27	15	26	1.96
3010551--3010620	27	2.5	28	90	2	106	31	8	8	51	1.63
3010551--3010634	27	3.0	27	81	10	98	28	9	11	50	1.70
3011072--3011105	4	8.5	4	100	0	68	73	0	0	26	0.83
3011149--3011188	14	2.9	14	88	7	55	40	27	7	25	1.82
3018978--3019011	5	6.8	5	86	0	50	79	5	0	14	0.91
3018978--3019011	15	2.3	15	100	0	68	79	5	0	14	0.91
3019412--3019490	41	1.9	41	84	5	106	35	22	17	24	1.95
3019213--3020664	258	5.6	259	89	2	2205	34	16	15	33	1.90
3019670--3019767	42	2.4	42	85	1	135	31	21	24	22	1.98
3020180--3020285	41	2.6	41	80	5	133	29	21	22	26	1.99
3026653--3026701	20	2.5	19	80	12	55	30	14	8	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3032269--3032334	6	11.0	6	72	6	53	1	25	0	72	0.93
3032284--3032323	13	3.2	12	86	13	55	0	27	0	72	0.85
3032274--3032338	30	2.2	28	84	7	85	0	26	0	73	0.83
3032274--3032334	24	2.6	23	78	21	72	0	26	0	73	0.83
3034697--3034892	87	2.2	88	83	0	241	39	13	19	26	1.89
3034684--3034892	44	4.8	44	82	2	233	41	13	19	25	1.88
3036464--3036501	20	1.9	20	89	10	60	42	2	2	52	1.29
3037335--3037395	25	2.4	25	83	0	68	18	45	19	16	1.85
3046588--3046734	72	2.0	72	92	2	242	27	13	21	37	1.91
3050111--3050376	44	6.0	44	89	3	358	41	11	21	25	1.86
3058638--3058687	3	16.7	3	84	15	68	70	0	2	28	0.99
3059874--3059918	20	2.3	20	77	7	58	66	0	0	33	0.92
3059868--3059918	18	2.7	20	79	14	63	68	0	0	31	0.90
3061930--3061974	21	2.1	21	95	0	81	60	0	0	40	0.97
3063054--3063217	61	2.9	56	79	16	176	45	8	11	34	1.71
3063475--3063535	3	20.3	3	86	6	88	34	1	0	63	1.04
3064620--3064691	19	3.5	20	71	15	67	27	15	27	29	1.96
3065014--3065564	56	9.9	56	88	2	797	37	11	18	32	1.86
3071540--3071592	20	2.7	20	82	5	63	41	16	24	16	1.89
3071629--3071693	28	2.3	28	91	2	103	27	10	32	29	1.90
3072017--3072567	56	9.9	56	89	0	775	37	10	18	32	1.86
3073821--3074065	110	2.2	109	84	3	305	23	14	14	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083939--3083986	21	2.3	21	88	0	69	33	16	14	35	1.89
3087117--3087148	16	1.9	17	93	6	57	31	0	6	62	1.20
3087154--3087193	21	2.0	19	85	9	53	37	0	2	60	1.11
3087210--3087244	2	17.5	2	100	0	70	48	0	0	51	1.00
3087237--3087278	21	2.0	22	85	4	59	40	9	7	42	1.65
3090179--3090276	49	2.0	49	91	0	160	33	10	28	27	1.89
3090321--3090346	6	4.3	6	100	0	52	15	15	15	53	1.73
3092207--3092277	22	3.6	19	83	10	81	28	15	30	25	1.96
3092149--3092334	94	2.0	96	85	2	259	30	17	25	27	1.97
3092154--3092374	95	2.3	94	81	3	228	31	16	23	28	1.96
3092693--3093196	54	9.3	54	82	4	586	28	18	19	33	1.95
3092695--3093196	170	3.1	162	83	5	609	29	18	18	33	1.95
3092745--3093159	224	1.9	224	86	0	596	28	19	18	33	1.95
3099283--3099335	21	2.6	19	80	13	61	35	16	22	24	1.95
3099356--3099420	22	3.2	20	77	12	62	26	13	33	26	1.94
3099375--3099419	22	2.0	23	86	4	65	28	13	31	26	1.94
3099283--3099486	94	2.2	96	83	5	256	31	16	24	26	1.96
3099301--3099496	95	2.1	95	83	1	241	32	16	24	27	1.96
3099841--3100124	54	5.3	54	87	2	365	29	17	20	32	1.95
3099844--3100124	107	2.6	108	87	0	402	29	17	19	33	1.95
3099841--3100134	161	1.8	160	86	0	390	30	17	20	31	1.95
3100515--3100559	22	2.0	23	86	4	65	37	0	13	48	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3103694--3103724	2	16.0	2	93	6	55	51	0	0	48	1.00
3105362--3106635	244	5.2	244	88	2	1787	33	16	16	32	1.92
3106095--3106196	42	2.5	42	79	4	109	26	23	20	29	1.99
3105417--3106614	487	2.5	484	89	3	1798	34	16	16	32	1.92
3106890--3106915	3	8.7	3	100	0	52	30	0	0	69	0.89
3107398--3107459	26	2.4	25	72	5	61	66	6	19	8	1.40
3109632--3109677	21	2.2	21	88	3	67	41	28	15	15	1.87
3112208--3112257	20	2.5	20	93	0	91	38	14	14	34	1.85
3115475--3115505	14	2.2	14	94	0	53	32	16	32	19	1.94
3115456--3115500	20	2.2	20	84	7	56	35	20	26	17	1.95
3115504--3115538	14	2.5	14	90	0	52	28	11	31	28	1.92
3116573--3116621	20	2.3	21	82	10	55	42	26	14	16	1.86
3117762--3117809	19	2.5	20	86	3	62	47	6	14	31	1.69
3119186--3119391	110	1.9	111	93	1	360	33	17	15	32	1.92
3121123--3121173	23	2.2	23	100	0	102	35	3	25	35	1.75
3123380--3123418	3	13.0	3	100	0	78	33	0	0	66	0.92
3123417--3123693	3	92.7	3	99	0	547	0	0	33	66	0.92
3124587--3124655	8	8.6	8	77	16	63	47	1	0	50	1.09
3124567--3124655	41	2.2	40	86	7	119	48	2	0	49	1.13
3124525--3124662	23	5.9	23	69	18	79	45	2	0	51	1.16
3124828--3124890	29	2.3	27	78	8	65	39	7	1	50	1.41
3125489--3125604	60	1.9	60	89	0	178	31	14	18	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3128594--3128627	14	2.3	15	90	5	52	32	5	29	32	1.81
3133588--3133721	70	1.9	71	84	6	182	41	13	20	23	1.88
3136079--3136199	64	1.9	62	81	5	145	38	12	4	44	1.64
3141464--3141560	42	2.3	41	83	1	122	29	20	24	24	1.99
3141680--3141781	42	2.5	41	80	3	114	31	20	21	26	1.98
3141128--3142115	216	4.6	215	91	3	1604	30	19	16	33	1.94
3141896--3141996	42	2.4	42	80	4	116	29	22	23	23	1.99
3142118--3142258	36	4.0	35	73	9	101	22	20	20	36	1.95
3148524--3148563	21	1.9	21	89	0	62	15	15	15	55	1.71
3152533--3152582	3	15.7	3	83	8	55	38	0	0	62	0.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18