genome.fa.s9605.2.7.7.80.10.50.1000.14.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  14  of  35  ( 4090 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)
3023535--3023614	34	2.4	34	76	4	90	26	15	15	43	1.85
3023571--3023671	51	2.0	51	80	7	116	35	12	8	42	1.75
3023605--3023674	17	4.1	17	81	0	77	38	12	7	41	1.71
3027516--3027586	17	4.2	17	80	3	63	39	9	7	43	1.65
3029003--3029205	55	3.7	55	90	1	320	38	10	15	35	1.82
3029003--3029203	108	1.8	109	92	2	341	38	10	15	35	1.82
3030763--3031087	162	2.0	163	99	0	643	31	13	20	34	1.91
3032373--3032421	19	2.6	19	84	15	66	69	0	12	18	1.19
3032440--3032478	2	19.5	2	100	0	78	51	0	0	48	1.00
3032627--3032717	28	3.2	26	73	15	65	75	10	2	10	1.12
3033788--3033845	25	2.4	23	83	11	64	77	0	1	20	0.86
3033950--3033999	26	1.9	26	83	0	64	46	2	2	50	1.24
3033884--3034246	37	9.8	37	81	8	398	44	6	3	45	1.47
3033891--3034246	73	4.8	73	85	6	434	43	6	3	45	1.48
3034899--3036039	84	13.7	84	82	3	1270	25	19	24	30	1.98
3037213--3037392	95	1.9	95	90	2	290	29	17	17	35	1.94
3040013--3040080	32	2.1	32	83	8	84	73	0	16	10	1.09
3040266--3040384	9	12.9	9	68	15	55	77	5	4	13	1.09
3041494--3041593	39	2.7	37	83	7	139	50	3	2	45	1.28
3041553--3041632	27	3.0	27	83	3	90	48	5	2	43	1.38
3041565--3041631	27	2.5	27	88	7	93	49	5	2	41	1.42
3041496--3041825	37	9.1	37	79	13	287	44	6	3	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3041832--3041906	2	38.5	2	94	5	136	50	0	0	49	1.00
3046311--3046569	45	5.7	45	85	2	286	24	22	12	40	1.89
3046299--3046522	89	2.5	90	84	1	306	25	22	13	37	1.91
3046406--3046686	46	6.2	46	87	2	316	23	20	9	45	1.81
3055059--3055379	54	5.8	54	78	6	207	29	20	22	26	1.99
3055059--3055274	56	3.8	55	80	7	191	29	19	21	29	1.98
3055203--3055294	28	3.4	28	67	24	79	34	23	21	19	1.96
3055173--3055384	54	3.9	54	83	2	255	31	21	23	23	1.98
3060152--3060187	18	1.9	19	88	5	56	19	11	0	69	1.18
3065213--3065245	17	2.0	17	88	5	50	24	18	24	33	1.97
3065339--3065366	12	2.3	12	100	0	56	46	0	0	53	1.00
3065353--3066345	22	45.6	22	83	2	1236	42	0	9	46	1.41
3065938--3065976	16	2.5	15	84	15	53	46	0	2	51	1.14
3066369--3066427	31	1.9	31	92	0	100	44	8	5	42	1.57
3066742--3066789	18	2.6	18	78	15	53	47	2	2	47	1.25
3067792--3067827	11	3.4	11	96	3	65	8	25	8	58	1.55
3070495--3070533	20	2.0	20	84	0	51	23	7	23	46	1.78
3070707--3070755	23	2.2	23	82	7	66	20	22	38	18	1.93
3090549--3090661	43	2.7	43	84	2	140	28	29	19	23	1.98
3090674--3091480	98	8.0	103	77	10	727	34	25	19	20	1.96
3090674--3091432	200	3.8	201	87	6	997	34	25	19	20	1.96
3109271--3109327	11	4.8	12	84	16	66	84	12	3	0	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3114395--3114435	20	2.0	20	100	0	82	46	4	29	19	1.71
3114925--3115229	44	6.9	44	87	1	423	40	11	23	23	1.88
3125594--3126331	110	6.8	110	72	12	367	41	13	7	37	1.73
3125803--3126059	102	2.5	102	77	6	232	42	12	8	35	1.74
3126002--3126371	113	3.3	113	82	3	420	39	14	7	39	1.73
3125899--3126371	227	2.1	216	80	8	504	40	13	6	38	1.72
3127019--3127070	17	3.1	17	80	0	59	40	5	15	38	1.71
3127749--3127793	21	2.1	21	87	0	63	31	6	24	37	1.81
3128033--3128269	127	1.9	121	84	9	313	17	18	8	56	1.64
3133576--3133619	17	2.5	17	85	10	54	63	29	0	6	1.20
3135091--3135440	174	2.0	174	95	1	630	25	16	6	52	1.66
3139253--3139408	11	14.7	11	68	20	57	71	2	25	1	1.07
3139249--3139303	22	2.3	24	81	12	69	74	1	23	0	0.91
3139260--3139411	43	3.5	41	71	16	112	71	2	24	1	1.06
3139249--3139378	20	6.3	21	77	12	101	71	2	24	1	1.06
3139249--3139413	36	4.6	35	72	18	94	71	3	24	1	1.07
3142720--3143470	136	5.5	136	84	3	891	37	16	19	26	1.93
3143446--3143487	17	2.5	17	96	0	75	52	4	26	16	1.63
3143558--3144689	136	8.7	134	79	12	911	35	17	19	27	1.94
3144303--3144689	117	3.1	120	81	12	378	36	17	18	26	1.93
3144592--3144887	108	2.8	106	84	10	362	35	17	20	26	1.95
3144827--3145311	125	3.9	125	81	11	501	34	18	20	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3145362--3164023	136	138.1	136	82	3	19957	35	17	19	27	1.94
3145362--3176048	544	56.7	542	80	5	28634	35	17	19	27	1.94
3145362--3169136	272	87.9	272	79	6	22006	35	17	19	27	1.94
3152833--3152867	17	2.1	17	100	0	70	48	28	5	17	1.69
3165294--3166075	136	5.8	135	83	1	888	35	17	19	26	1.94
3165895--3166257	183	2.0	183	83	1	458	34	18	19	28	1.95
3166078--3169136	136	22.5	136	83	1	3522	35	17	19	27	1.95
3169015--3169249	114	2.1	113	86	0	317	34	16	19	29	1.94
3168880--3169385	249	2.0	249	84	1	665	34	16	19	28	1.94
3169129--3176048	136	50.9	136	83	1	7828	35	17	19	27	1.94
3177112--3177452	172	2.0	173	90	1	540	25	14	6	53	1.65
3180366--3180492	32	3.7	33	72	18	105	25	13	25	35	1.93
3180680--3180727	22	2.2	22	96	0	87	39	10	14	35	1.80
3192236--3192274	5	8.0	5	94	2	62	17	20	0	61	1.34
3192230--3192283	15	3.6	15	85	5	56	22	16	0	61	1.35
3195671--3195759	26	3.5	26	77	9	76	73	0	22	4	1.02
3195679--3195770	22	4.2	22	73	11	73	75	0	21	3	0.95
3195741--3195778	10	4.0	10	80	13	53	81	0	18	0	0.69
3195745--3195784	18	2.2	18	95	0	71	85	0	12	2	0.71
3195859--3195894	5	7.2	5	100	0	72	80	0	0	19	0.71
3197015--3197042	12	2.3	12	100	0	56	7	10	14	67	1.40
3197542--3197846	37	8.3	37	80	11	260	41	9	5	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3197542--3197835	74	4.0	77	81	10	330	41	9	5	44	1.59
3198500--3198708	73	2.9	72	79	5	240	27	14	22	35	1.93
3206079--3206120	21	2.0	21	90	4	68	45	4	2	47	1.36
3206121--3206402	37	7.6	36	82	10	248	39	8	5	47	1.57
3206110--3206402	110	2.6	109	83	8	333	39	8	5	47	1.57
3206124--3206402	73	3.8	73	87	4	330	39	8	5	46	1.57
3206914--3206981	28	2.4	29	80	7	86	38	33	5	22	1.78
3209586--3211990	136	17.9	136	80	3	2423	35	17	19	27	1.94
3209766--3210001	117	2.0	117	88	0	346	33	16	19	29	1.95
3212001--3212108	54	2.0	53	89	5	164	41	13	24	20	1.88
3212046--3213583	136	11.2	136	79	5	1406	35	17	19	27	1.95
3212046--3213583	272	5.6	272	82	3	1734	35	17	19	27	1.95
3209883--3213583	408	9.0	408	73	10	2628	35	17	19	27	1.95
3213038--3213079	17	2.5	17	96	0	75	52	4	23	19	1.65
3212902--3213215	153	2.1	153	84	2	407	38	15	19	26	1.91
3213702--3213745	17	2.5	17	85	10	54	63	29	0	6	1.20
3213815--3213867	27	2.0	27	96	0	97	24	45	1	28	1.64
3213817--3213874	27	2.1	27	90	0	89	22	50	3	24	1.65
3215185--3215540	176	2.0	178	91	4	587	25	15	5	52	1.65
3220576--3220622	24	1.9	25	83	12	62	48	0	4	46	1.21
3221211--3221241	13	2.4	13	94	0	53	64	3	0	32	1.09
3226890--3226952	2	32.0	2	96	3	119	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3229753--3229833	42	2.0	41	85	2	108	24	20	20	33	1.97
3228985--3230081	428	2.5	431	93	1	1828	32	15	19	31	1.93
3228985--3230081	216	5.1	215	93	2	1810	32	15	19	31	1.93
3234540--3234586	24	1.9	25	83	12	62	48	0	4	46	1.21
3236762--3236987	42	5.4	42	75	7	183	50	4	18	26	1.67
3236762--3236991	84	2.7	84	80	4	232	49	4	19	26	1.68
3239725--3239752	7	4.0	7	100	0	56	28	57	0	14	1.38
3248339--3248379	16	2.6	16	96	0	73	31	21	26	19	1.97
3253290--3253340	15	3.4	15	94	0	84	5	15	68	9	1.36
3253309--3253351	11	3.5	11	77	22	50	6	16	67	9	1.40

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