genome.fa.s8717.2.7.7.80.10.50.1000.15.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

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

This is table  15  of  16  ( 1896 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)
3067173--3067276	8	13.6	8	71	21	55	78	0	20	0	0.80
3067186--3067284	11	9.1	11	80	15	84	78	0	19	2	0.84
3067188--3067277	31	2.8	31	79	19	103	80	0	18	1	0.78
3067171--3067265	28	3.3	29	77	21	85	78	0	20	1	0.80
3067174--3067285	42	2.7	41	78	14	122	78	0	19	1	0.84
3069748--3069928	93	1.9	93	81	4	213	30	24	14	30	1.95
3069814--3070049	121	2.0	121	91	1	384	26	24	17	31	1.97
3070105--3070625	134	3.9	134	81	4	541	28	24	17	30	1.97
3070811--3070851	3	13.0	3	90	10	64	34	2	0	63	1.08
3072029--3072101	29	2.6	27	82	8	83	21	13	8	56	1.64
3076278--3076356	33	2.4	34	84	4	106	27	40	24	7	1.82
3078755--3078877	60	2.0	60	92	0	201	31	13	33	21	1.92
3080908--3080946	13	2.9	13	81	7	51	58	0	2	38	1.12
3084165--3084203	19	2.1	19	100	0	78	56	23	0	20	1.42
3085965--3086015	2	26.0	2	96	4	95	49	0	0	50	1.00
3087582--3087624	20	2.2	20	82	0	50	48	6	6	37	1.57
3087720--3087760	13	3.2	13	82	6	57	39	2	7	51	1.43
3089542--3089584	20	2.2	20	83	8	52	69	13	0	16	1.19
3089612--3089649	18	2.1	19	85	5	51	21	0	18	60	1.36
3096062--3096100	20	2.0	20	84	0	51	51	2	5	41	1.38
3097744--3097801	30	1.9	30	100	0	116	37	3	8	50	1.50
3097794--3097846	21	2.5	22	84	3	63	24	1	3	69	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3099898--3099935	17	2.3	17	95	4	69	18	5	0	76	0.97
3102169--3102198	12	2.5	12	94	0	51	3	6	3	86	0.77
3102690--3102757	22	3.2	22	65	10	61	35	23	13	27	1.92
3102695--3102809	41	2.8	42	88	5	171	33	22	13	30	1.93
3108103--3108174	29	2.5	29	95	2	128	37	15	8	38	1.77
3108908--3108994	3	29.0	3	97	0	165	32	0	0	67	0.91
3110070--3110136	29	2.3	29	84	0	89	35	4	23	35	1.76
3114839--3114964	64	2.0	64	84	3	164	30	23	15	29	1.96
3115648--3115693	20	2.3	20	96	3	85	17	47	8	26	1.76
3120516--3120595	23	3.6	22	72	6	72	27	26	21	25	1.99
3121301--3121396	48	2.0	48	100	0	192	41	31	2	25	1.67
3122960--3122994	13	2.7	13	86	0	52	40	8	5	45	1.58
3130629--3131404	203	3.6	215	78	10	702	39	12	14	33	1.84
3131480--3131518	20	1.9	21	94	5	71	38	10	10	41	1.73
3131812--3132357	199	2.7	198	85	3	675	34	12	12	40	1.81
3134729--3134753	12	2.1	12	100	0	50	8	24	20	48	1.76
3136662--3136719	25	2.3	25	93	0	98	53	0	22	24	1.46
3136662--3136719	12	4.6	13	74	8	57	53	0	22	24	1.46
3136662--3136739	25	3.0	25	84	3	75	53	0	23	23	1.46
3138602--3138626	13	1.9	13	100	0	50	52	0	0	48	1.00
3140372--3140873	199	2.5	199	90	1	767	34	14	12	39	1.83
3141548--3141694	33	4.5	33	93	0	222	43	34	5	17	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3142475--3142523	12	4.1	12	89	0	71	46	8	12	32	1.71
3142477--3142523	6	7.8	6	80	0	58	48	6	12	31	1.66
3142607--3142750	72	2.0	74	87	2	211	32	13	13	40	1.84
3143183--3143271	45	2.0	45	95	0	160	39	1	14	44	1.53
3144449--3144506	18	3.2	18	82	0	62	36	8	29	25	1.86
3144631--3145645	198	5.1	198	89	2	1518	33	13	13	39	1.83
3144631--3145645	397	2.6	397	92	0	1656	33	13	13	39	1.83
3147330--3147367	12	3.2	12	84	0	58	0	34	2	63	1.09
3147329--3147383	21	2.4	23	88	8	78	1	36	1	60	1.18
3147331--3147383	12	4.7	12	75	17	51	1	33	1	62	1.17
3149464--3149915	177	2.6	177	84	3	565	32	15	12	39	1.84
3149903--3149996	20	4.7	20	71	5	73	28	12	13	44	1.81
3152711--3152803	44	2.1	44	100	0	186	26	2	6	64	1.29
3155843--3155879	19	1.9	19	88	0	56	48	0	0	51	1.00
3155871--3155912	19	2.2	20	87	12	61	69	7	0	23	1.13
3156121--3156213	40	2.3	41	83	5	109	30	31	11	26	1.92
3156658--3156726	20	3.8	20	72	21	69	47	21	15	14	1.81
3156726--3156776	20	2.5	21	83	6	68	17	11	19	50	1.76
3160750--3160853	21	4.7	22	77	11	97	28	19	25	25	1.98
3160751--3160853	44	2.3	44	83	9	129	29	19	25	26	1.99
3164640--3164679	21	1.9	21	85	10	55	35	10	2	52	1.48
3166608--3166681	19	3.7	19	83	15	87	22	18	32	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3166722--3166776	20	2.7	21	94	2	94	25	20	32	21	1.97
3167991--3168088	42	2.3	42	82	3	117	28	34	17	19	1.94
3168204--3168256	21	2.5	21	81	0	61	20	16	32	30	1.95
3168509--3168550	4	10.5	4	84	0	57	26	2	2	69	1.13
3168695--3168766	21	3.4	21	96	0	126	19	38	18	23	1.93
3170278--3170321	20	2.2	20	100	0	88	45	18	18	18	1.86
3172721--3172745	12	2.1	12	100	0	50	0	28	0	72	0.86
3173794--3173950	20	7.8	19	70	16	84	26	11	28	34	1.91
3173794--3173847	21	2.8	19	83	8	56	25	9	25	38	1.86
3173803--3173950	42	3.6	41	73	15	121	27	11	27	34	1.91
3174325--3174354	7	4.3	7	100	0	60	43	0	0	56	0.99
3176355--3176382	6	4.7	6	100	0	56	32	32	17	17	1.94
3183424--3183453	14	2.1	14	100	0	60	13	23	6	56	1.60
3185382--3186012	318	2.0	317	97	0	1199	33	20	16	29	1.94
3187646--3187700	13	4.4	13	84	6	78	38	12	0	49	1.41
3187646--3187716	23	2.9	24	85	6	81	40	9	1	47	1.45
3187650--3187707	12	4.9	11	76	19	55	39	10	0	50	1.37
3189518--3189559	3	13.7	3	95	5	75	35	0	0	64	0.94
3190502--3190653	30	5.1	30	78	5	157	18	14	9	57	1.63
3190499--3190653	60	2.6	59	80	8	188	18	14	9	57	1.63
3190498--3190704	30	7.0	28	75	7	108	17	14	10	57	1.65
3193106--3193147	7	6.1	7	83	10	52	16	14	16	52	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3194488--3194611	16	6.9	17	70	20	67	73	8	16	1	1.15
3194493--3194537	18	2.7	16	82	6	54	80	6	13	0	0.91
3194501--3194562	24	2.6	24	85	7	74	75	6	17	0	1.00
3195884--3195978	35	2.7	35	85	6	122	29	20	12	37	1.89
3195888--3195978	36	2.6	34	84	6	112	30	20	13	35	1.91
3196028--3196185	66	2.4	64	84	8	210	23	22	14	39	1.91
3196188--3196542	131	2.7	130	81	4	388	25	32	17	24	1.97
3198249--3198598	30	11.6	30	75	9	230	18	12	10	58	1.62
3198359--3198456	31	3.1	31	78	8	108	18	9	7	65	1.44
3198277--3198516	123	2.0	121	86	4	340	19	11	9	59	1.58
3198271--3198552	153	1.8	153	80	8	342	18	11	9	59	1.58
3198249--3198534	60	4.7	60	81	8	321	19	12	9	58	1.61
3198249--3198606	90	4.0	89	76	9	332	18	12	10	58	1.61
3198249--3198592	60	5.7	61	77	10	271	18	12	10	58	1.61
3199599--3199647	22	2.2	22	96	0	89	32	18	6	42	1.75
3200767--3200800	16	2.2	16	89	5	52	38	0	0	61	0.96
3201258--3201339	29	2.8	29	73	1	83	41	14	7	36	1.74
3204747--3204883	3	45.7	3	72	15	56	29	5	0	64	1.22
3204733--3204801	21	3.5	19	81	16	70	36	2	2	57	1.28
3204733--3204784	23	2.4	20	81	15	59	34	3	1	59	1.27
3204819--3204887	13	5.5	13	76	11	54	21	5	0	72	1.05
3205335--3205383	20	2.3	20	82	6	53	18	2	4	75	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3205440--3205514	26	2.9	27	75	15	86	14	2	8	74	1.15
3205447--3205493	19	2.3	21	89	7	71	17	4	4	74	1.14
3209155--3209233	39	2.0	39	90	0	122	29	27	24	18	1.98
3218211--3218267	23	2.5	23	85	0	78	54	15	0	29	1.42
3220178--3220212	16	2.2	16	89	0	52	51	0	17	31	1.45
3224916--3225031	61	1.9	60	98	1	223	41	15	12	30	1.85
3225883--3225931	12	3.5	15	73	23	52	0	12	10	77	0.99
3225883--3225916	15	2.2	15	89	5	50	0	11	8	79	0.94
3225898--3225927	11	2.7	11	100	0	60	0	13	6	80	0.91
3225883--3225916	17	2.1	17	88	5	52	0	11	8	79	0.94

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