genome.fa.s7984.2.7.7.80.10.50.1000.15.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  15  of  65  ( 7696 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)
3043180--3043238	14	4.2	14	93	0	82	49	6	0	44	1.29
3043187--3043257	2	36.0	2	84	8	92	50	2	2	43	1.31
3043187--3043277	12	7.7	11	82	6	65	54	2	2	40	1.24
3043302--3043336	16	2.2	16	89	0	52	68	0	0	31	0.90
3044377--3044558	83	2.2	83	83	5	215	24	18	20	36	1.95
3045679--3046057	65	5.6	65	73	11	241	38	10	18	31	1.86
3045811--3045929	36	3.3	36	84	2	157	37	13	21	27	1.91
3045823--3045914	37	2.5	36	87	1	121	41	15	21	21	1.90
3046016--3046087	37	1.9	37	91	0	117	40	13	19	26	1.89
3047743--3047802	21	3.0	21	74	18	65	3	16	0	80	0.85
3047730--3047801	28	2.7	26	81	10	81	4	18	0	77	0.92
3047744--3047801	26	2.2	26	84	6	71	1	17	0	81	0.78
3047750--3047807	10	5.8	10	76	13	57	1	15	1	81	0.86
3050933--3050967	9	3.9	9	88	0	52	82	2	0	14	0.77
3050935--3050975	18	2.2	19	91	4	66	80	2	2	14	0.92
3051198--3051284	39	2.3	39	83	13	112	65	2	4	27	1.24
3051307--3051349	8	5.4	8	94	0	50	48	6	0	44	1.29
3051314--3051368	2	28.0	2	83	10	69	50	1	3	43	1.30
3051333--3051400	25	2.6	25	81	9	66	61	0	2	35	1.11
3051319--3051391	14	5.1	15	83	9	73	57	0	2	39	1.13
3053171--3053230	31	1.9	31	89	0	93	40	6	8	45	1.61
3053723--3053856	63	2.1	65	95	2	245	55	1	0	42	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3053778--3053852	24	3.0	26	79	14	86	54	1	1	42	1.17
3053837--3053892	26	2.2	26	84	9	71	71	0	0	28	0.86
3053846--3053890	20	2.2	20	84	0	54	71	0	0	28	0.87
3053740--3053880	63	2.2	63	88	5	205	59	0	0	39	1.08
3054687--3054721	17	1.9	18	88	11	54	51	25	0	22	1.48
3054945--3055163	113	1.9	112	88	4	325	30	11	13	44	1.79
3063829--3063860	2	16.0	2	100	0	64	50	0	0	50	1.00
3065144--3065186	21	2.0	21	86	0	59	34	25	6	32	1.83
3068668--3068737	31	2.3	31	100	0	140	21	28	34	15	1.94
3085564--3085593	4	7.8	4	92	7	53	23	0	0	76	0.78
3085664--3085688	7	3.6	7	100	0	50	44	40	0	16	1.47
3085700--3085796	34	2.9	33	80	10	110	30	14	3	51	1.57
3086005--3086056	15	3.5	15	77	15	63	21	19	5	53	1.65
3085968--3086140	75	2.3	75	79	7	201	22	19	5	52	1.67
3098770--3098918	60	2.5	58	79	6	156	30	23	6	38	1.81
3100379--3100824	130	3.4	130	97	0	813	20	11	25	41	1.86
3103953--3104023	26	2.7	27	82	8	92	39	2	0	57	1.13
3105348--3105451	21	4.8	22	79	5	90	37	22	17	23	1.94
3105437--3105609	20	8.6	20	85	3	224	34	26	20	19	1.96
3106109--3106183	19	3.8	20	84	7	98	44	18	25	12	1.84
3106202--3106299	19	5.7	19	71	22	99	10	23	21	44	1.82
3106224--3106313	14	5.7	14	72	23	72	8	24	22	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3106207--3106321	33	3.5	33	100	0	230	9	23	20	46	1.79
3108018--3108300	93	3.1	93	98	0	541	22	12	19	45	1.84
3108348--3108476	19	7.3	19	75	17	125	45	28	17	8	1.77
3108384--3108476	33	2.8	32	91	4	150	46	27	18	7	1.76
3108348--3108476	52	2.5	52	74	14	140	45	28	17	8	1.77
3108472--3108605	19	7.6	19	73	18	110	11	17	25	46	1.81
3108477--3108570	32	2.9	32	88	1	143	10	17	23	48	1.77
3110661--3110758	19	5.4	19	82	13	134	44	17	22	15	1.86
3110661--3110777	53	2.2	53	96	1	218	43	17	23	14	1.87
3110767--3110987	19	12.7	19	76	19	241	14	20	18	46	1.84
3110791--3111001	33	6.2	32	76	16	212	13	20	18	46	1.83
3110773--3110956	52	3.5	52	96	0	332	14	21	17	47	1.82
3113304--3113328	12	2.1	12	100	0	50	0	28	0	72	0.86
3113503--3113549	24	2.0	24	87	8	69	38	21	14	25	1.92
3114260--3114484	20	11.2	20	87	1	245	19	19	24	36	1.95
3114471--3114553	21	4.0	21	73	6	78	25	16	24	33	1.96
3114451--3114549	42	2.4	43	77	11	100	21	18	23	37	1.94
3114574--3114610	19	2.0	18	94	5	65	10	16	24	48	1.77
3115752--3115819	23	3.0	22	74	8	55	44	1	2	51	1.25
3115789--3115859	19	3.6	19	70	10	54	47	1	1	49	1.18
3115813--3115990	30	6.6	26	69	24	79	50	1	0	47	1.15
3115902--3115967	8	8.6	8	71	15	50	43	0	1	54	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3115934--3115983	14	3.3	14	76	17	55	54	0	0	46	1.00
3115931--3115977	22	2.1	23	92	4	78	51	0	0	48	1.00
3115939--3115982	22	2.0	22	86	8	63	52	0	0	47	1.00
3116207--3116299	42	2.2	42	90	0	141	49	17	16	17	1.80
3116540--3116628	33	2.8	31	85	9	117	32	12	6	48	1.67
3116546--3116612	33	2.0	33	97	0	125	34	13	7	44	1.72
3118871--3119142	3	91.0	3	91	0	411	33	0	5	61	1.18
3120033--3120078	19	2.4	19	85	7	58	36	4	6	52	1.47
3121846--3121879	11	3.0	11	83	8	50	41	0	0	58	0.98
3127809--3127868	23	2.5	24	86	2	77	46	16	18	18	1.84
3127809--3127844	11	3.2	11	84	7	54	50	19	16	13	1.79
3127810--3127848	12	3.3	12	78	7	53	46	20	17	15	1.84
3127785--3127871	24	3.7	23	79	3	84	48	17	12	21	1.80
3130319--3130361	13	3.3	13	83	0	59	16	16	46	20	1.84
3132502--3132573	24	3.0	23	83	2	90	51	18	9	20	1.74
3132516--3132574	12	5.0	12	70	12	50	49	18	13	18	1.80
3135035--3135064	13	2.3	13	94	0	51	13	20	46	20	1.83
3139132--3140057	4	234.5	4	95	2	1651	25	1	24	48	1.59
3141930--3142111	95	1.9	93	90	4	285	26	9	16	47	1.78
3142340--3142396	21	2.8	21	86	2	71	47	3	0	49	1.18
3142493--3142552	23	2.7	23	79	7	61	56	1	0	41	1.09
3142542--3142647	34	3.5	30	72	22	80	48	1	0	49	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3144248--3144376	61	2.1	61	92	0	213	43	11	24	20	1.85
3150179--3150220	10	4.5	10	80	17	54	19	7	0	73	1.05
3153058--3153098	21	2.0	21	85	9	57	63	0	34	2	1.08
3155735--3155792	30	1.9	30	86	6	82	39	18	3	37	1.68
3158804--3158881	29	2.6	29	81	6	84	41	8	2	47	1.49
3158957--3159271	30	10.9	29	72	12	177	54	0	8	36	1.37
3159154--3159208	21	2.5	22	73	8	67	52	0	7	40	1.29
3166967--3167006	21	1.9	21	89	0	62	15	25	0	60	1.35
3168397--3168444	23	2.1	23	88	0	69	35	10	18	35	1.85
3168875--3169329	182	2.5	182	89	1	707	28	16	12	43	1.83
3169201--3169661	112	4.1	111	92	1	753	25	15	14	44	1.84
3169201--3169661	223	2.1	223	92	1	755	25	15	14	44	1.84
3178471--3179531	80	13.1	80	86	1	1296	24	19	24	30	1.98
3180718--3180925	99	2.1	98	82	10	255	33	16	14	34	1.90
3185094--3185177	23	3.7	23	93	0	132	27	27	26	19	1.99
3186781--3186825	22	2.0	23	91	4	74	8	26	31	33	1.87
3186853--3186896	21	2.1	21	86	0	61	15	27	27	29	1.96
3190248--3190308	23	2.7	23	92	0	104	24	27	27	19	1.99
3191886--3191928	22	2.0	22	90	0	68	11	25	37	25	1.90
3192839--3192894	14	3.9	14	81	9	60	58	3	0	37	1.15
3192985--3193098	36	3.2	35	74	12	117	43	10	1	43	1.49
3193633--3193743	27	4.0	25	73	21	80	69	0	9	19	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3193686--3193758	16	4.4	16	73	11	58	67	0	12	20	1.23
3193755--3193823	36	1.9	36	90	0	111	60	0	11	27	1.31
3193764--3193842	19	4.3	19	70	6	72	58	0	10	31	1.31
3195028--3195073	16	3.1	15	80	20	60	63	4	0	32	1.14
3195034--3195084	26	2.0	26	81	14	61	62	3	0	33	1.13
3195094--3195123	14	2.1	15	93	6	53	46	6	0	46	1.29
3195118--3195352	36	6.3	36	80	12	226	41	8	4	45	1.53
3195309--3195338	15	2.0	15	93	0	51	46	3	6	43	1.46
3195340--3195369	2	15.5	2	93	6	53	46	0	0	53	1.00
3195072--3195352	112	2.5	110	79	14	308	43	8	3	44	1.52

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65