genome.fa.s8228.2.7.7.80.10.50.1000.18.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  18  of  20  ( 2363 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)
3175740--3175853	35	3.2	34	74	8	111	35	18	16	28	1.93
3180464--3180514	20	2.5	21	84	12	63	27	31	15	25	1.96
3184173--3184211	2	19.5	2	100	0	78	51	0	0	48	1.00
3184271--3184379	54	2.0	54	91	3	175	33	14	21	30	1.93
3188976--3189018	16	2.7	16	81	0	59	30	4	32	32	1.78
3189014--3189410	135	3.0	130	78	9	391	44	14	15	25	1.84
3190636--3191068	139	3.1	139	85	1	582	27	16	27	28	1.97
3191108--3191154	21	2.2	21	96	0	85	38	17	19	25	1.92
3192592--3192633	18	2.3	18	87	0	57	42	11	19	26	1.85
3192600--3192635	18	2.0	18	94	0	63	44	8	16	30	1.77
3193334--3193399	23	2.8	23	73	22	64	56	1	9	33	1.40
3195117--3195169	26	2.0	27	88	7	81	64	3	3	28	1.28
3196965--3196993	12	2.3	13	94	5	51	62	20	6	10	1.50
3198281--3198341	16	3.8	16	88	0	77	34	3	29	32	1.74
3198281--3198341	32	1.9	32	89	0	95	34	3	29	32	1.74
3198467--3198865	131	3.0	131	90	3	602	45	14	16	23	1.85
3201191--3201263	20	3.7	20	98	0	137	39	17	20	21	1.92
3201252--3201357	20	5.2	20	73	6	88	27	23	21	27	1.99
3201527--3201585	22	2.7	22	83	0	73	20	42	11	25	1.86
3201957--3202044	20	4.4	20	84	1	79	18	19	22	39	1.92
3202007--3202047	20	2.0	20	100	0	82	9	14	19	56	1.66
3203810--3203871	31	2.0	31	87	9	90	22	8	17	51	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3204024--3204145	34	3.4	34	73	12	118	36	21	22	20	1.96
3204043--3204111	20	3.5	20	82	7	77	36	26	20	17	1.94
3204001--3204147	74	2.0	74	90	0	231	36	21	21	21	1.95
3204155--3204235	33	2.4	34	87	2	119	14	19	24	40	1.90
3204207--3204275	20	3.5	20	85	0	84	21	18	24	34	1.96
3204262--3204305	20	2.2	20	95	0	79	15	11	20	52	1.74
3204785--3204867	21	4.0	20	79	6	76	20	36	19	24	1.95
3206242--3206307	30	2.2	30	100	0	132	28	3	13	54	1.54
3206457--3206713	20	13.9	20	71	14	167	22	21	21	35	1.96
3206423--3206631	34	5.9	34	73	14	152	21	22	21	35	1.96
3206418--3206632	73	2.9	73	88	2	279	21	21	21	35	1.96
3206477--3206578	53	1.9	54	93	2	179	20	20	23	35	1.96
3206550--3206696	53	2.7	54	87	2	215	21	21	20	36	1.95
3206474--3206710	127	1.9	127	88	3	361	21	21	21	35	1.96
3206888--3206922	18	1.9	18	94	0	61	17	2	25	54	1.57
3212655--3212688	14	2.4	14	95	5	59	38	8	23	29	1.85
3214465--3214632	86	2.0	85	81	9	198	29	17	18	34	1.94
3214465--3214647	43	4.2	44	76	13	157	29	19	19	32	1.96
3214595--3214692	43	2.3	43	77	13	103	31	18	23	26	1.97
3214843--3215007	43	3.9	42	84	2	204	18	21	17	42	1.89
3221135--3221182	8	5.8	8	90	9	78	0	4	10	85	0.73
3221128--3221181	16	3.2	16	79	7	63	0	5	12	81	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223421--3223497	36	2.1	36	92	0	127	38	18	12	29	1.88
3226005--3226223	41	5.4	39	79	8	249	34	21	20	24	1.97
3226005--3226223	83	2.7	82	87	2	307	34	21	20	24	1.97
3230926--3230996	31	2.4	30	95	4	126	18	8	19	53	1.69
3231206--3231273	31	2.2	31	84	10	86	44	5	19	30	1.74
3236561--3236610	26	1.9	26	84	8	66	20	10	24	46	1.81
3238045--3238131	23	3.8	23	86	3	113	39	22	22	14	1.91
3238040--3238140	46	2.2	45	84	5	123	39	19	21	18	1.92
3244404--3244495	23	4.0	23	84	2	114	30	23	25	20	1.99
3245126--3245162	19	2.1	19	85	10	51	35	10	16	37	1.83
3247110--3247171	15	4.0	15	74	12	54	66	3	3	27	1.23
3247110--3247148	17	2.5	16	88	12	55	69	2	0	28	1.02
3248169--3248393	4	56.2	4	88	0	270	41	24	8	26	1.82
3248460--3248564	28	3.6	29	75	13	99	39	11	11	38	1.78
3254368--3254410	2	21.0	2	90	4	68	51	0	2	46	1.13
3255727--3255819	48	2.0	47	84	2	123	33	22	13	30	1.93
3255971--3256260	55	5.3	55	88	0	402	35	17	11	35	1.86
3259503--3259546	23	2.0	23	81	4	54	50	11	2	36	1.51
3265449--3265550	23	4.7	23	84	9	108	22	35	22	19	1.96
3265466--3265527	23	2.7	23	97	0	115	20	32	25	20	1.98
3265510--3265549	21	1.9	21	94	0	71	25	37	25	12	1.91
3270033--3270063	14	2.1	15	94	5	55	19	35	0	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3271118--3271211	48	2.0	47	85	6	127	28	24	15	30	1.96
3271374--3271776	172	2.4	166	87	4	576	35	17	12	34	1.87
3271369--3271776	55	7.3	55	88	2	530	35	17	12	34	1.87
3272130--3272177	19	2.5	19	93	0	78	22	31	12	33	1.91
3273249--3273285	14	2.8	13	92	8	58	29	0	0	70	0.88
3273247--3273285	19	2.0	20	90	5	62	28	0	0	71	0.86
3274566--3274595	14	2.1	14	93	0	51	40	3	0	56	1.16
3276589--3276625	18	2.0	19	89	5	58	21	2	2	72	1.09
3276661--3276704	18	2.5	17	85	10	61	22	4	6	65	1.35
3281554--3281604	18	2.8	18	74	11	50	23	11	19	45	1.83
3285877--3285917	3	13.7	3	100	0	82	31	0	0	68	0.90
3293959--3294058	34	2.8	36	91	8	161	43	15	13	29	1.83
3293959--3294094	37	3.8	35	84	9	159	41	13	13	30	1.84
3294446--3294488	15	2.9	15	79	6	52	25	4	4	65	1.32
3297565--3297603	8	5.0	8	84	6	53	10	17	12	58	1.61
3298732--3298793	23	2.7	22	80	9	72	79	6	14	0	0.93
3298732--3298800	20	3.2	20	82	10	66	79	5	13	1	0.97
3299409--3299459	22	2.3	22	96	0	93	35	27	11	25	1.91
3300322--3300428	37	2.9	37	90	2	162	28	24	11	36	1.90
3300337--3300692	102	3.5	102	92	0	586	30	19	12	37	1.89
3300555--3300627	37	2.0	37	91	0	119	26	20	13	39	1.90
3300475--3300791	167	1.9	168	90	3	505	30	19	11	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3300577--3300756	65	2.8	64	90	3	288	31	20	11	36	1.88
3300708--3300791	37	2.3	36	87	6	116	25	20	13	41	1.88
3300864--3300935	37	1.9	37	85	0	99	27	22	9	40	1.85
3301539--3302304	105	7.3	105	91	2	1112	33	26	17	22	1.96
3302848--3302986	37	3.8	37	83	9	169	41	14	13	30	1.84
3303343--3303380	15	2.7	15	84	8	53	23	5	2	68	1.23
3303343--3303457	61	1.9	61	82	10	146	30	3	2	63	1.24
3303425--3303478	28	2.0	26	85	7	72	31	1	0	66	1.02
3305200--3305623	37	11.9	36	73	16	225	48	3	4	43	1.40
3305177--3305641	74	6.4	73	76	16	359	46	3	5	44	1.43
3305517--3305584	30	2.3	30	92	0	109	47	4	4	44	1.43
3307891--3307933	18	2.4	18	84	7	52	67	0	6	25	1.15
3308542--3308596	23	2.4	23	100	0	110	67	3	18	10	1.35
3309638--3309676	14	2.8	14	84	11	53	2	20	2	74	1.06
3309652--3309709	17	3.7	16	75	20	52	12	20	3	63	1.42
3316165--3316211	18	2.6	19	83	10	62	63	0	8	27	1.23
3320876--3321216	120	2.8	122	84	3	445	33	22	19	24	1.97
3320876--3321240	124	3.0	124	83	3	461	33	23	18	24	1.97
3321397--3321680	84	3.4	84	79	5	322	32	24	18	24	1.97
3322260--3322635	37	10.2	36	77	16	310	45	4	6	43	1.51
3322266--3322724	37	12.8	35	76	14	309	44	4	6	44	1.50
3322260--3322712	74	6.3	73	79	14	430	44	4	6	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3322600--3322667	30	2.3	30	89	0	100	45	4	5	44	1.48
3322564--3322699	64	2.1	64	81	8	161	45	3	5	44	1.45
3323975--3324024	22	2.3	22	83	10	66	14	2	6	78	1.03
3324185--3324215	7	4.6	7	92	8	55	25	0	0	74	0.82
3324186--3324215	13	2.3	13	100	0	60	26	0	0	73	0.84
3324704--3324762	28	2.1	27	84	6	73	33	0	16	49	1.47
3324937--3325016	3	26.7	3	87	9	119	31	2	0	66	1.05
3331635--3331673	19	2.0	20	90	5	62	28	15	28	28	1.96
3336179--3336303	63	2.0	63	100	0	250	26	22	12	38	1.90
3343160--3343674	173	3.0	173	91	1	809	36	18	18	26	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20