genome.fa.s8016.2.7.7.80.10.50.1000.14.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  14  of  25  ( 2971 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)
2997357--2997407	20	2.6	20	87	3	77	41	3	9	45	1.56
2997402--2997470	22	3.5	19	79	18	70	44	7	1	46	1.40
2997391--2997485	42	2.2	44	81	12	117	46	6	1	46	1.35
2999861--2999893	13	2.4	14	85	15	50	42	0	0	57	0.98
3003300--3003545	123	2.0	123	100	0	492	30	18	18	31	1.95
3004524--3004585	20	3.3	18	78	15	63	77	1	3	17	0.98
3004601--3004640	20	2.1	19	85	4	53	80	5	2	12	0.98
3005852--3006092	36	6.5	37	81	10	253	46	5	3	43	1.45
3009839--3009879	19	2.1	20	86	4	57	24	29	17	29	1.97
3010707--3010814	51	2.1	50	87	1	162	41	25	7	25	1.81
3011065--3011097	17	2.0	16	94	5	57	51	0	0	48	1.00
3020855--3020926	35	2.1	35	83	0	90	50	8	9	31	1.65
3022491--3022552	22	2.7	23	77	18	65	41	0	1	56	1.09
3022498--3022571	26	3.0	26	80	9	75	45	1	1	51	1.18
3023757--3023797	21	2.0	21	85	0	55	51	0	0	48	1.00
3023785--3023828	22	2.0	22	86	0	61	54	2	2	40	1.25
3024792--3024844	21	2.5	21	81	6	72	20	26	18	33	1.96
3024871--3025008	41	3.4	41	81	6	163	34	24	16	23	1.95
3024882--3024988	20	5.3	20	80	6	117	32	26	17	23	1.97
3024883--3025002	40	3.0	40	80	7	143	35	25	15	23	1.95
3025175--3025218	22	2.0	22	90	0	70	20	43	15	20	1.88
3025467--3025525	20	3.0	20	87	0	73	15	18	22	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3025662--3025716	25	2.2	24	78	15	58	20	9	18	52	1.71
3026845--3026892	18	2.7	18	93	0	87	27	45	12	14	1.81
3027443--3027498	20	2.8	20	81	2	69	39	21	23	16	1.92
3027487--3027543	14	3.7	14	70	20	51	52	21	15	10	1.72
3027471--3027564	33	2.8	33	95	0	170	48	20	18	12	1.80
3027471--3027586	19	6.6	19	71	18	108	47	19	18	13	1.82
3027626--3027699	20	3.7	20	87	1	94	16	17	25	40	1.90
3028047--3028107	21	3.0	20	73	7	68	24	42	11	21	1.86
3028044--3028137	44	2.2	42	82	3	116	22	43	13	20	1.87
3029774--3029847	20	3.7	20	94	0	130	14	22	24	37	1.92
3030037--3030089	21	2.5	21	81	6	72	20	26	18	33	1.96
3030079--3030192	21	5.5	21	73	11	92	38	19	20	21	1.93
3030096--3030214	62	1.9	62	98	0	229	37	21	19	21	1.94
3030079--3030253	82	2.1	82	85	4	228	36	21	20	21	1.95
3030181--3030234	20	2.7	20	94	0	90	29	27	20	22	1.98
3030974--3031027	24	2.2	24	90	0	81	22	16	20	40	1.91
3031202--3031226	12	2.1	12	100	0	50	72	0	28	0	0.86
3032821--3032913	20	4.7	20	70	13	66	37	23	17	21	1.94
3032887--3032980	33	2.8	33	95	0	161	45	19	23	11	1.83
3032887--3032978	19	5.4	18	66	24	65	46	18	22	11	1.82
3033009--3033055	19	2.5	19	96	0	85	12	21	21	44	1.85
3033020--3033063	19	2.3	19	88	0	61	15	20	18	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3033162--3033198	14	2.6	14	91	0	65	45	21	0	32	1.52
3034588--3034667	42	1.9	42	84	0	106	22	17	38	21	1.93
3036855--3036943	20	4.8	19	72	18	80	46	17	23	12	1.82
3036855--3036978	33	3.5	33	82	7	131	45	16	22	14	1.84
3037585--3037657	20	3.7	20	88	0	119	20	20	20	38	1.94
3037654--3037707	20	2.7	20	75	13	56	42	16	22	18	1.89
3037749--3037801	21	2.5	22	81	6	74	33	18	26	20	1.96
3044587--3044622	15	2.4	15	95	0	63	36	41	5	16	1.72
3044758--3044803	21	2.2	21	84	7	58	26	30	17	26	1.97
3059622--3059663	15	2.7	15	82	10	50	2	19	9	69	1.28
3061227--3061759	4	133.8	4	99	0	1052	49	25	0	24	1.50
3075133--3075172	17	2.6	16	88	11	57	30	17	25	27	1.97
3077428--3077453	13	2.0	13	100	0	52	38	7	0	53	1.30
3094901--3094939	20	2.0	20	85	10	53	53	10	7	28	1.62
3094897--3095091	75	2.6	75	81	3	214	51	11	6	30	1.62
3095747--3095832	43	2.0	43	100	0	172	18	46	9	25	1.79
3097247--3097301	2	27.5	2	100	0	110	50	0	0	49	1.00
3097902--3098141	118	2.0	118	98	0	462	37	10	10	41	1.74
3108835--3108898	2	33.0	2	87	6	96	48	3	0	48	1.17
3111172--3111313	37	3.4	39	69	28	91	19	4	2	72	1.16
3111209--3111275	6	10.7	6	73	23	50	22	1	0	76	0.87
3111208--3111273	27	2.3	29	82	12	84	22	1	0	75	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3111208--3111262	20	2.5	22	80	8	60	23	1	0	74	0.91
3111280--3111342	30	2.1	29	88	8	92	17	7	4	69	1.30
3111134--3111348	69	3.0	72	74	16	198	19	6	2	71	1.22
3111361--3111385	3	8.3	3	100	0	50	32	0	0	68	0.90
3111174--3111371	74	2.7	71	74	16	179	18	6	3	71	1.21
3111251--3111380	69	1.9	69	81	12	160	20	6	3	70	1.25
3114393--3114477	37	2.4	35	79	16	86	74	8	16	1	1.12
3115067--3115121	22	2.5	22	93	0	101	36	25	12	25	1.91
3116147--3117103	423	2.3	423	92	1	1596	33	25	18	22	1.96
3116147--3117103	106	9.0	106	93	0	1542	33	25	18	22	1.96
3118532--3118773	40	6.1	39	72	20	159	19	6	3	71	1.21
3118573--3118627	26	2.1	26	90	6	85	21	1	0	76	0.88
3118569--3118682	50	2.3	51	82	11	130	21	3	1	73	1.07
3118534--3118772	39	6.2	37	73	20	179	18	6	3	71	1.21
3118569--3118639	26	2.8	25	78	17	76	22	2	0	74	0.94
3118664--3118716	5	10.8	5	80	8	56	16	5	1	75	1.08
3120707--3120905	5	38.4	5	67	20	58	20	5	2	71	1.17
3120757--3120823	6	10.7	6	73	23	50	22	1	0	76	0.87
3120756--3120821	27	2.3	29	82	12	84	22	1	0	75	0.88
3120757--3120871	51	2.3	51	82	10	130	20	3	1	73	1.06
3120758--3120823	23	3.0	22	77	18	66	22	1	0	75	0.88
3120715--3120961	40	6.1	38	74	18	189	19	6	3	70	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3120757--3120870	25	4.7	24	74	18	87	21	3	1	73	1.07
3120763--3120961	79	2.6	76	80	15	214	19	6	3	71	1.20
3123680--3123766	35	2.5	34	77	18	90	56	9	6	27	1.56
3123761--3123844	34	2.5	33	81	12	91	61	14	2	21	1.43
3123757--3123833	34	2.2	34	84	11	95	61	16	1	20	1.42
3132719--3132757	15	2.6	15	87	0	60	46	12	12	28	1.79
3136267--3136399	45	2.9	45	85	7	171	30	11	21	36	1.88
3146004--3146054	6	8.3	6	82	10	59	82	0	15	1	0.76
3146004--3146050	24	1.9	25	86	4	69	80	0	17	2	0.80
3146007--3146093	30	3.0	28	72	11	68	77	0	18	4	0.94
3146014--3146056	19	2.3	19	92	4	70	83	0	16	0	0.64
3146034--3146141	17	6.2	17	73	23	82	71	0	19	9	1.13
3147523--3148036	55	9.6	54	87	7	513	27	16	26	29	1.97
3150780--3150878	33	3.0	33	94	1	164	45	15	7	32	1.73
3150873--3150914	21	2.0	21	95	0	75	47	7	14	30	1.71
3152482--3152609	3	42.0	3	87	3	175	37	0	1	60	1.06
3153981--3154049	28	2.6	28	84	11	83	28	1	4	65	1.21
3153981--3154068	28	3.4	26	77	19	78	29	1	4	64	1.20
3154050--3154096	23	2.0	24	87	4	69	31	0	2	65	1.04
3154220--3154271	15	3.4	16	75	17	56	32	3	0	63	1.12
3154846--3154891	22	2.2	20	84	11	56	26	0	0	73	0.83
3154845--3154890	16	2.9	15	82	17	58	26	0	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3154846--3154895	13	3.9	14	84	10	63	26	0	0	74	0.83
3157193--3157234	7	6.0	7	83	10	59	14	16	9	59	1.60
3157197--3157259	20	3.0	20	81	9	65	14	11	9	65	1.48
3165233--3165553	165	1.9	164	91	5	531	34	14	13	37	1.85
3165598--3165864	36	7.3	36	68	7	189	31	20	13	34	1.91
3165552--3165855	73	4.2	73	96	0	545	30	21	13	35	1.91
3165568--3165875	36	8.4	36	68	8	185	31	20	12	35	1.90
3165933--3166048	20	5.3	20	64	25	56	24	25	17	32	1.96
3165920--3166156	45	5.3	45	97	0	429	25	22	17	34	1.96
3166283--3166386	3	34.0	3	85	3	136	37	0	1	60	1.08

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