genome.fa.s8302.2.7.7.80.10.50.1000.16.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: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3402722

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  16  of  17  ( 1926 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)
3178704--3179017	178	1.8	170	83	9	418	25	19	8	46	1.78
3180311--3180356	25	2.0	23	83	12	58	45	2	0	52	1.13
3180491--3180571	21	3.8	21	70	20	60	46	2	1	49	1.23
3180491--3180553	23	2.8	22	77	13	58	47	1	1	49	1.20
3180636--3180704	26	2.8	24	77	14	59	47	1	5	44	1.35
3180721--3180768	22	2.1	24	84	7	64	47	0	0	52	1.00
3180805--3180952	70	2.1	71	93	6	259	39	17	9	33	1.82
3181107--3181153	15	3.0	15	76	17	51	46	0	2	51	1.13
3181415--3181463	11	4.7	11	77	10	50	22	24	40	12	1.88
3182805--3182847	14	3.3	13	78	9	52	9	65	18	6	1.44
3186038--3186085	20	2.5	19	80	10	53	31	20	25	22	1.98
3186606--3186640	18	1.9	18	94	0	61	20	20	34	25	1.96
3188893--3188947	23	2.4	23	81	6	67	14	20	16	49	1.80
3189412--3189488	2	38.5	2	100	0	154	50	0	0	49	1.00
3192291--3192318	2	14.0	2	100	0	56	50	0	0	50	1.00
3192775--3192808	15	2.2	16	89	5	52	23	23	0	52	1.47
3196249--3196273	3	8.3	3	100	0	50	32	0	0	68	0.90
3196568--3196891	166	2.0	165	99	0	639	31	32	13	22	1.92
3201505--3201584	26	3.3	25	70	19	80	25	25	10	40	1.86
3202208--3202252	21	2.2	22	88	11	69	68	8	20	2	1.27
3202194--3202246	26	2.1	24	82	6	61	71	7	18	1	1.19
3202242--3202300	18	3.3	18	84	11	77	72	13	8	5	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3202260--3202294	11	3.2	11	87	0	52	71	11	11	5	1.30
3203390--3203471	4	21.0	4	82	5	105	48	21	1	28	1.58
3203825--3203922	35	2.8	36	93	3	171	35	16	11	36	1.84
3204045--3204276	101	2.3	96	80	12	238	31	19	12	36	1.89
3204223--3204339	35	3.4	33	83	4	135	32	20	11	35	1.88
3204242--3204344	33	3.1	33	85	2	134	35	19	9	34	1.85
3204223--3204372	68	2.2	67	83	3	183	32	20	12	35	1.89
3204622--3204882	29	9.2	28	72	14	160	27	10	14	46	1.78
3204657--3204736	25	3.1	24	81	12	79	26	8	15	50	1.72
3204596--3204912	146	2.2	147	98	0	609	26	12	14	46	1.81
3204879--3204982	52	2.0	53	92	3	174	32	14	17	35	1.90
3204970--3205033	30	2.1	30	94	0	110	35	9	14	40	1.78
3204962--3205038	30	2.7	29	84	9	104	32	7	15	44	1.75
3204986--3205146	64	2.5	64	80	8	157	29	11	13	46	1.77
3205309--3205429	64	1.9	63	87	1	179	27	13	11	47	1.77
3205412--3205490	39	2.0	40	85	2	106	30	21	11	36	1.89
3205584--3205626	14	2.9	15	89	3	61	32	20	4	41	1.73
3205910--3205997	34	2.5	34	83	7	104	36	14	11	37	1.83
3205910--3205986	38	2.1	37	86	9	106	36	11	11	40	1.78
3206002--3206115	36	3.4	34	71	21	98	22	21	14	41	1.90
3206228--3206529	46	7.0	45	72	14	161	25	31	19	23	1.98
3206241--3206515	43	6.4	44	72	13	178	25	30	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3206234--3206570	129	2.6	129	92	4	532	25	30	18	24	1.98
3212618--3212658	2	20.5	2	100	0	82	51	0	0	48	1.00
3220192--3220225	17	2.0	17	94	0	59	32	5	17	44	1.73
3220223--3220277	23	2.4	23	84	3	76	34	18	20	27	1.95
3220272--3220328	19	3.0	19	81	0	69	26	17	31	24	1.97
3232837--3232879	2	22.0	2	95	4	79	51	0	0	48	1.00
3234882--3234920	20	1.9	21	89	5	62	38	10	10	41	1.73
3236273--3236312	21	1.9	21	94	0	71	20	27	10	42	1.83
3238691--3238729	17	2.4	17	95	4	71	43	0	5	51	1.24
3249358--3249432	29	2.8	26	71	11	69	49	4	2	44	1.35
3250274--3250308	2	17.5	2	100	0	70	48	0	0	51	1.00
3264997--3265665	183	3.7	182	84	3	772	45	13	13	27	1.81
3266005--3266750	391	1.9	388	83	6	970	36	13	16	33	1.88
3265992--3266750	193	3.9	198	83	6	901	36	13	16	33	1.87
3270493--3270548	20	2.9	19	78	5	69	23	17	30	28	1.97
3273076--3273110	17	2.1	17	94	5	63	62	0	25	11	1.28
3277421--3277475	18	2.9	19	73	7	58	23	18	29	29	1.98
3277421--3277476	20	2.9	18	75	15	51	25	17	28	28	1.98
3278958--3279015	30	1.9	30	86	6	82	29	3	15	51	1.60
3278965--3279019	24	2.3	24	87	3	76	30	3	16	49	1.63
3280759--3281765	199	5.0	199	89	2	1563	37	14	16	31	1.90
3280759--3281765	401	2.5	396	90	4	1571	37	14	16	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3283557--3283596	22	1.9	21	85	10	55	27	15	10	47	1.77
3284126--3284171	23	2.0	24	82	4	58	34	21	13	30	1.91
3284278--3284329	23	2.3	23	79	0	68	34	13	7	44	1.72
3284224--3284485	136	1.9	136	86	3	368	35	11	10	43	1.74
3284516--3284567	16	3.2	16	88	2	77	34	21	1	42	1.64
3287042--3287194	76	2.0	76	91	2	245	37	12	18	30	1.88
3289510--3289586	20	3.7	20	74	17	59	28	23	16	31	1.96
3289510--3289567	20	2.7	20	81	10	62	27	20	18	32	1.97
3289555--3289712	64	2.5	64	81	8	171	24	24	18	32	1.97
3305162--3305201	21	1.9	21	89	0	62	47	0	5	47	1.24
3305244--3305334	32	2.9	32	83	1	94	43	2	4	49	1.34
3307263--3307302	2	20.0	2	100	0	80	50	0	0	50	1.00
3307930--3307996	34	1.9	34	82	14	84	22	13	17	46	1.83
3310866--3310898	2	16.5	2	100	0	66	48	0	0	51	1.00
3314193--3314316	41	3.1	41	70	23	111	38	7	6	47	1.57
3314363--3314435	33	2.2	33	85	2	94	21	16	21	39	1.92
3315094--3315141	15	3.1	15	77	14	53	45	2	0	52	1.12
3324774--3324809	2	18.0	2	100	0	72	50	0	0	50	1.00
3329834--3329937	37	2.8	37	81	7	122	33	13	13	39	1.84
3330631--3332006	106	13.0	106	92	0	2200	22	18	24	33	1.97
3332015--3332148	37	3.7	36	80	5	144	38	15	20	26	1.92
3332895--3332971	22	3.5	22	87	0	109	23	10	23	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3333556--3333603	19	2.6	18	83	6	60	2	12	6	79	1.01
3333569--3333612	18	2.4	18	88	7	63	0	13	6	79	0.92
3336802--3336904	37	2.8	37	76	12	106	67	1	9	20	1.28
3336834--3336871	20	1.9	20	88	0	58	63	2	7	26	1.35
3337365--3337468	36	2.8	36	80	2	118	31	14	13	40	1.85
3339824--3339963	64	2.2	64	84	5	176	27	17	21	33	1.96
3343422--3343456	15	2.3	15	100	0	70	14	22	34	28	1.93
3350203--3350237	15	2.3	15	100	0	70	14	22	34	28	1.93
3354967--3355039	18	3.9	18	84	7	101	27	30	21	20	1.98
3354966--3355042	38	2.0	38	92	0	127	27	28	22	22	1.99
3357454--3357489	18	2.0	18	100	0	72	44	11	11	33	1.75
3367940--3368065	37	3.4	37	84	0	162	27	19	14	38	1.91
3368082--3368168	36	2.4	36	92	5	140	26	17	14	41	1.88
3368006--3368267	103	2.6	100	87	3	344	31	16	13	38	1.87
3368082--3368499	137	3.1	134	80	10	507	30	17	13	38	1.89
3368184--3368303	36	3.4	37	80	4	131	32	17	12	37	1.87
3368319--3368373	21	2.6	21	97	0	101	23	23	10	41	1.86
3368210--3368429	37	5.6	37	73	16	165	29	19	13	37	1.90
3368233--3368476	124	2.0	123	90	0	389	29	18	13	38	1.89
3368494--3368914	139	3.0	138	81	2	466	32	28	14	24	1.95
3369158--3369221	3	20.7	3	76	12	58	34	4	1	59	1.28
3369183--3369234	15	3.5	15	77	15	54	34	5	0	59	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371841--3371883	20	2.2	20	95	0	77	30	18	20	30	1.97
3373950--3374025	36	2.1	36	97	0	143	43	14	10	31	1.79
3378499--3378528	15	2.0	15	100	0	60	13	46	26	13	1.80
3378952--3379027	36	2.1	36	97	0	143	43	14	10	31	1.79
3380674--3380749	38	2.0	38	97	2	145	28	7	40	22	1.82
3385108--3385228	60	2.0	60	85	0	161	44	18	9	28	1.80
3385643--3385763	57	2.1	57	98	1	235	42	9	6	41	1.64
3386732--3386796	2	32.5	2	100	0	130	49	0	0	50	1.00
3387477--3387637	88	1.8	88	87	2	243	33	13	19	33	1.90
3390529--3390557	3	10.0	3	92	7	51	68	0	0	31	0.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17