genome.fa.s7957.2.7.7.80.10.50.1000.16.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  16  of  43  ( 5063 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)
3083230--3083330	42	2.4	41	80	3	121	30	22	22	23	1.99
3083047--3083597	215	2.6	214	93	0	922	32	18	15	33	1.92
3083440--3083542	42	2.5	41	80	4	118	30	22	22	25	1.99
3084606--3084663	29	2.0	29	100	0	116	20	41	0	37	1.53
3086966--3087026	20	2.9	21	87	7	79	18	26	34	21	1.96
3092741--3092859	37	3.2	37	82	9	145	21	16	21	40	1.91
3094810--3094874	33	2.0	32	82	14	80	58	10	10	20	1.61
3094965--3095054	46	2.0	46	95	0	162	33	22	16	27	1.95
3105303--3105340	17	2.2	17	86	9	51	68	2	2	26	1.16
3105639--3105676	17	2.2	17	100	0	76	15	26	7	50	1.72
3106036--3106063	6	4.7	6	100	0	56	32	50	17	0	1.47
3106685--3106778	22	4.4	22	78	8	122	38	25	18	18	1.93
3106707--3106880	41	4.2	41	89	4	169	37	25	18	18	1.94
3106742--3106883	20	6.9	20	71	7	106	36	25	20	17	1.94
3106726--3106907	82	2.2	81	83	9	251	35	24	18	21	1.95
3106790--3106925	21	6.6	21	72	3	123	33	25	16	24	1.96
3106670--3106798	63	2.1	62	89	5	181	39	24	19	17	1.92
3106767--3106901	41	3.3	41	95	0	252	34	26	18	20	1.95
3115692--3115820	67	1.9	67	95	0	231	16	13	17	52	1.74
3117998--3118048	26	2.0	26	84	7	68	49	9	1	39	1.47
3120709--3121437	107	6.9	104	96	1	1183	24	25	18	31	1.97
3120709--3121433	160	4.5	158	96	1	1222	25	25	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3120709--3121433	267	2.7	267	97	0	1346	25	25	18	31	1.97
3122781--3122865	11	7.3	11	76	19	75	11	8	0	80	0.92
3122794--3122868	8	11.1	7	75	23	56	13	9	0	77	0.99
3122782--3122841	19	3.3	19	80	13	72	11	8	0	80	0.92
3122782--3122855	38	1.9	38	86	10	107	12	8	0	79	0.92
3122804--3122855	8	6.8	8	86	8	72	13	7	0	78	0.94
3131258--3131308	26	2.0	26	84	7	68	49	9	1	39	1.47
3133756--3133793	3	13.0	3	94	5	69	31	0	0	68	0.90
3135068--3135108	18	2.3	18	87	8	57	12	65	4	17	1.42
3135175--3135219	18	2.5	18	96	0	81	31	42	20	6	1.77
3135452--3135489	19	2.1	19	85	5	51	31	7	15	44	1.75
3136370--3136413	23	2.0	23	86	4	63	45	2	4	47	1.35
3137380--3137418	19	2.0	20	90	5	62	58	0	2	38	1.12
3137562--3137596	17	2.1	17	89	5	54	40	0	5	54	1.24
3146241--3146311	18	3.6	18	72	20	70	36	22	16	23	1.94
3147389--3147426	15	2.4	17	82	8	53	21	5	13	60	1.52
3148235--3148580	172	2.0	172	98	1	676	41	11	16	30	1.84
3148781--3148833	20	2.7	20	88	5	72	47	24	15	13	1.81
3148842--3149035	20	9.6	20	78	6	194	37	24	18	19	1.94
3148842--3149035	40	4.8	41	91	1	302	37	24	18	19	1.94
3148842--3149048	81	2.6	81	88	3	265	37	24	18	20	1.94
3149594--3149665	20	3.5	20	81	5	74	51	19	15	13	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3149655--3149718	14	4.2	14	72	18	56	46	20	21	10	1.81
3149649--3149729	33	2.5	33	89	0	126	46	22	19	11	1.81
3149725--3149870	19	8.1	19	74	17	123	12	22	20	44	1.85
3149747--3149803	14	3.7	14	70	20	51	10	22	22	43	1.84
3149730--3149821	33	2.8	33	96	0	175	10	21	21	45	1.82
3149791--3149861	20	3.6	19	86	5	97	12	22	22	42	1.87
3152302--3152340	20	2.0	20	90	10	62	35	23	17	23	1.95
3152311--3152351	20	2.0	20	85	0	55	39	21	17	21	1.93
3152369--3152477	20	5.3	20	78	8	121	21	17	24	36	1.94
3152375--3152500	41	3.0	41	77	10	132	22	17	24	35	1.95
3152364--3152501	61	2.2	60	79	9	145	22	18	24	34	1.96
3152362--3152538	20	8.8	20	72	11	94	20	17	24	37	1.94
3152717--3152741	12	2.1	12	100	0	50	52	0	0	48	1.00
3154218--3154269	17	2.8	18	74	11	52	51	0	3	44	1.19
3156209--3156262	28	1.9	28	84	0	72	40	7	7	44	1.60
3158114--3158483	187	2.0	189	98	1	726	24	31	19	24	1.98
3158829--3158883	21	2.5	22	80	11	60	30	20	16	32	1.94
3160025--3160068	21	2.1	21	83	8	54	43	9	9	38	1.68
3165384--3165426	17	2.5	17	100	0	86	46	4	18	30	1.69
3167884--3168082	70	2.8	70	86	2	265	29	15	24	31	1.95
3168988--3169367	188	2.0	191	98	1	739	46	16	10	27	1.78
3170215--3170350	30	4.5	30	81	9	152	55	9	15	19	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3171693--3171770	3	25.7	3	97	2	147	67	0	0	32	0.90
3172055--3172252	83	2.4	83	82	5	238	26	18	32	23	1.97
3172478--3172646	67	2.5	65	80	8	178	43	16	11	28	1.83
3173495--3173680	93	2.0	93	100	0	372	35	11	10	41	1.77
3178811--3178880	30	2.3	30	80	4	79	60	17	10	12	1.59
3178832--3178957	30	4.2	30	73	13	100	57	11	11	19	1.65
3178876--3178966	29	3.1	29	69	20	80	54	7	15	21	1.66
3179600--3179648	24	2.0	24	92	0	80	40	22	10	26	1.86
3181334--3181596	131	2.0	131	100	0	526	47	15	5	31	1.67
3181975--3182015	20	2.0	20	85	0	55	56	14	2	26	1.51
3184243--3184330	29	3.0	28	71	12	70	36	13	7	42	1.74
3197905--3198742	418	2.0	419	98	0	1624	31	14	20	33	1.93
3199187--3199236	20	2.5	20	83	6	66	36	18	22	24	1.95
3199806--3199861	21	2.7	21	85	0	76	48	26	7	17	1.73
3208368--3208658	41	7.1	41	74	5	189	33	16	17	32	1.92
3209113--3209193	24	3.6	23	73	17	80	28	23	24	23	2.00
3212739--3212885	71	2.1	70	98	1	285	25	13	16	44	1.84
3215054--3215102	19	2.7	17	84	9	53	26	20	28	24	1.99
3216550--3216707	78	2.0	78	92	0	262	29	8	21	40	1.83
3226092--3226203	44	2.6	44	91	1	172	43	10	22	23	1.84
3226212--3226353	48	3.0	48	89	2	196	38	12	23	26	1.90
3228019--3228086	35	1.9	35	87	0	100	45	19	0	35	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3228087--3228159	36	2.1	35	86	2	101	32	1	16	49	1.54
3241536--3241853	158	2.0	159	99	0	629	38	16	9	35	1.81
3244404--3244482	3	26.7	3	97	2	151	34	0	0	65	0.93
3248938--3249033	47	2.0	47	97	0	183	36	18	22	21	1.95
3253567--3253596	15	2.0	15	100	0	60	46	13	13	26	1.80
3253620--3253659	9	4.3	9	87	6	62	77	0	15	7	0.98
3253619--3253655	19	2.0	19	94	5	67	81	0	13	5	0.86
3256050--3256139	42	2.2	41	83	2	117	25	22	22	30	1.99
3255884--3256811	258	3.6	258	91	1	1438	34	16	16	32	1.92
3261756--3261803	22	2.2	21	82	10	53	8	6	10	75	1.20
3261825--3261850	2	13.0	2	100	0	52	50	0	50	0	1.00
3263744--3263794	2	27.0	2	88	11	81	47	0	0	52	1.00
3264826--3264856	2	15.5	2	100	0	62	48	0	0	51	1.00
3270166--3270300	66	2.0	68	97	2	256	35	22	13	28	1.92
3271906--3271950	11	4.1	11	80	8	56	13	8	4	73	1.23
3273866--3273979	39	2.9	41	85	9	164	17	18	16	47	1.83
3274240--3274283	21	2.1	20	87	8	61	38	0	2	59	1.10
3274597--3274646	20	2.5	20	90	0	82	34	14	8	44	1.74
3274630--3274701	30	2.4	30	95	2	128	33	20	4	41	1.72
3274630--3274701	15	4.9	15	79	3	92	33	20	4	41	1.72
3275101--3275439	171	2.0	168	97	1	633	35	10	8	44	1.70
3276276--3276538	126	2.1	126	97	0	501	40	11	15	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3281136--3281448	65	4.6	65	77	9	227	28	18	11	42	1.85
3281473--3281819	131	2.6	131	82	6	421	25	34	17	23	1.96
3281473--3281833	135	2.7	131	82	5	438	25	33	17	23	1.96
3287960--3288128	38	4.6	37	78	10	170	42	9	4	43	1.56
3287951--3288090	36	3.9	35	81	9	158	41	9	4	45	1.56
3287960--3288128	74	2.3	74	80	8	186	42	9	4	43	1.56
3289168--3289263	30	3.2	30	83	2	122	37	7	14	40	1.74
3293080--3293140	19	3.2	18	86	9	86	44	9	14	31	1.78
3293892--3294005	43	2.7	42	90	2	183	58	13	10	17	1.62
3298570--3298763	97	2.0	98	97	2	374	35	16	20	27	1.94

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