genome.fa.s8716.2.7.7.80.10.50.1000.13.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  13  of  24  ( 2813 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)
3240152--3240231	41	2.0	41	87	5	117	20	32	30	17	1.95
3240661--3240735	34	2.2	34	95	0	132	32	14	29	24	1.95
3241748--3241787	19	2.0	20	85	4	55	55	5	15	25	1.60
3243378--3243420	21	2.0	22	90	4	70	23	20	30	25	1.99
3243703--3243772	34	2.1	32	84	5	86	34	12	28	24	1.92
3245011--3245068	20	2.7	20	81	10	62	29	22	17	31	1.96
3245056--3245192	64	2.2	63	81	9	154	24	23	18	33	1.97
3252256--3252368	56	2.0	56	94	0	199	33	20	14	31	1.92
3261263--3261304	2	21.0	2	100	0	84	50	0	0	50	1.00
3282020--3282078	27	2.2	27	96	0	109	25	13	16	44	1.85
3282101--3282143	20	2.2	20	91	4	70	30	2	16	51	1.57
3282366--3282408	20	2.2	20	87	4	61	34	18	9	37	1.83
3285434--3285548	50	2.3	49	83	7	133	20	27	21	29	1.98
3285704--3285744	18	2.3	18	87	4	57	29	7	2	60	1.36
3286406--3286520	51	2.3	51	84	6	144	22	28	33	15	1.95
3289976--3290030	28	2.0	28	85	7	76	34	14	3	47	1.62
3290584--3290640	29	2.0	27	83	6	69	33	3	3	59	1.31
3290356--3290714	175	2.0	175	92	5	603	31	5	11	51	1.61
3292286--3292346	21	2.9	21	92	0	95	27	29	14	27	1.95
3292736--3292817	25	3.6	25	69	25	72	20	4	6	68	1.31
3302946--3303075	50	2.6	51	91	2	217	13	23	16	46	1.81
3310536--3310599	31	2.1	31	90	0	101	26	10	17	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3310846--3310897	23	2.3	23	83	6	61	42	19	0	38	1.51
3316841--3317126	102	2.8	102	76	13	286	37	12	12	37	1.80
3316742--3317125	204	1.9	205	81	12	468	37	11	12	38	1.79
3317237--3317315	41	1.9	41	97	0	149	46	10	8	34	1.69
3328681--3328720	18	2.2	18	86	0	53	40	7	2	50	1.44
3328940--3329012	35	2.0	35	81	5	83	57	2	8	31	1.42
3330155--3330213	29	2.0	29	96	0	109	57	5	3	33	1.37
3330587--3330617	9	3.3	9	91	8	53	12	0	0	87	0.55
3330589--3330615	10	2.7	10	100	0	54	7	0	0	92	0.38
3335066--3335105	21	1.9	21	89	0	62	30	0	12	57	1.36
3335508--3335544	18	2.1	18	89	0	56	37	0	8	54	1.30
3339256--3339318	21	3.0	21	81	2	83	44	6	26	22	1.76
3339506--3339610	53	2.0	52	94	1	183	47	12	7	32	1.69
3339814--3340211	201	2.0	197	94	1	697	36	9	11	42	1.73
3340251--3340291	12	3.4	12	78	21	50	24	0	19	56	1.42
3341051--3341090	21	1.9	21	89	0	62	37	12	2	47	1.55
3351183--3351221	14	2.8	14	84	0	51	35	28	12	23	1.91
3360403--3360536	29	4.5	28	79	9	126	36	5	1	55	1.33
3360586--3360780	29	6.8	29	74	11	143	55	1	6	35	1.35
3360626--3360753	28	4.5	28	78	13	118	53	0	7	37	1.35
3360578--3360798	57	4.0	55	79	15	208	57	1	6	35	1.33
3374951--3374993	21	2.0	21	81	0	50	30	30	25	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3376591--3376658	23	3.0	23	88	0	91	20	26	26	26	1.99
3378817--3378860	21	2.1	21	100	0	88	29	4	34	31	1.78
3379635--3379660	2	13.0	2	100	0	52	50	0	0	50	1.00
3380143--3380197	2	27.5	2	100	0	110	50	0	0	49	1.00
3381225--3382202	105	9.3	105	92	2	1491	21	17	26	33	1.96
3383036--3383194	67	2.4	67	88	2	230	33	10	22	33	1.88
3383069--3383528	102	4.5	102	90	1	652	36	11	21	30	1.90
3383069--3383528	205	2.2	206	88	1	692	36	11	21	30	1.90
3383441--3383543	36	2.8	37	88	5	145	37	12	24	25	1.90
3385044--3385105	20	3.0	21	79	9	65	1	16	6	75	1.08
3385062--3385114	23	2.4	22	84	6	72	0	15	5	79	0.91
3386271--3386306	8	4.6	8	89	6	56	55	13	16	13	1.69
3386271--3386306	15	2.3	15	90	4	54	55	13	16	13	1.69
3388186--3388269	2	42.5	2	97	2	161	51	0	0	48	1.00
3388688--3388735	2	24.5	2	95	4	89	52	0	0	47	1.00
3388733--3388768	18	2.1	18	89	5	56	66	2	5	25	1.27
3389237--3389570	20	16.2	20	74	9	235	38	25	18	16	1.92
3389294--3389561	42	6.4	42	91	3	329	36	27	19	17	1.93
3389240--3389539	62	4.9	59	77	11	275	37	26	19	16	1.93
3389666--3389730	6	11.5	6	98	1	102	29	53	16	0	1.43
3390219--3390389	6	29.3	6	95	4	307	0	16	50	32	1.46
3390485--3390964	20	23.2	20	78	13	426	16	19	26	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3390492--3390964	42	11.4	41	84	11	430	16	19	26	37	1.92
3390485--3390963	62	7.7	58	81	12	398	16	19	26	38	1.92
3406458--3406545	28	3.1	28	81	4	95	38	9	11	40	1.73
3406484--3406560	30	2.6	29	81	6	91	41	7	10	40	1.68
3415746--3415845	28	3.6	28	85	8	91	16	31	30	23	1.96
3415772--3415845	26	2.7	27	89	10	116	14	33	32	18	1.92
3415899--3415966	29	2.3	29	92	0	109	13	35	30	20	1.91
3426776--3426837	31	2.0	31	100	0	124	29	32	16	22	1.95
3430373--3430447	28	2.6	28	80	2	87	38	9	9	42	1.69
3432375--3432401	2	13.5	2	100	0	54	48	0	0	51	1.00
3434937--3434962	2	13.0	2	100	0	52	50	0	0	50	1.00
3441829--3441908	42	1.9	42	86	0	115	21	5	38	35	1.75
3449333--3449487	80	1.9	80	85	5	215	34	21	19	23	1.96
3464375--3464424	18	2.8	18	93	0	82	24	2	4	70	1.15
3464374--3464469	44	2.3	44	85	7	128	29	2	6	62	1.31
3464374--3464469	22	4.5	22	80	6	110	29	2	6	62	1.31
3464904--3464951	14	3.6	13	83	11	62	35	4	2	58	1.29
3464897--3465008	26	4.4	26	82	8	122	33	1	3	60	1.24
3464977--3465040	32	2.0	32	90	6	103	32	0	3	64	1.10
3464897--3465033	54	2.6	51	80	14	127	33	1	3	61	1.22
3470135--3470178	23	2.0	22	90	4	70	70	4	11	13	1.31
3470658--3470703	22	2.0	22	83	12	56	52	13	2	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473282--3473315	2	17.0	2	100	0	68	50	0	0	50	1.00
3473637--3473666	3	10.0	3	100	0	60	0	33	0	66	0.92
3473746--3473792	2	23.5	2	100	0	94	48	0	0	51	1.00
3475407--3475448	21	2.0	21	86	9	59	45	4	7	42	1.52
3477422--3477455	3	11.3	3	93	0	59	29	0	0	70	0.87
3494539--3494630	36	2.6	36	98	0	175	43	11	17	27	1.84
3504660--3504789	42	3.1	42	92	2	219	21	20	22	36	1.95
3504687--3504961	63	4.3	62	76	13	256	20	18	24	36	1.95
3504678--3504950	42	6.5	43	88	4	230	20	18	24	36	1.95
3504678--3504894	105	2.1	105	93	0	371	20	17	25	35	1.95
3504771--3504961	42	4.5	42	91	1	301	20	18	25	35	1.95
3506621--3506670	21	2.4	20	83	9	64	28	16	12	44	1.83
3507235--3507283	21	2.3	21	89	0	71	28	16	14	40	1.87
3506515--3508090	613	2.6	613	94	1	2694	37	16	13	32	1.87
3507842--3507896	21	2.6	21	88	2	74	27	20	10	41	1.85
3513376--3513420	23	2.0	22	83	12	56	13	15	11	60	1.60
3513853--3513877	5	5.0	5	100	0	50	40	40	20	0	1.52
3515990--3516025	11	3.3	11	88	0	54	0	16	0	83	0.65
3515983--3516025	22	2.0	22	85	0	59	0	13	4	81	0.84
3520805--3520940	47	2.9	47	91	2	202	44	5	9	40	1.59
3520838--3520920	27	3.3	26	66	22	70	48	4	7	39	1.52
3520864--3520939	25	3.2	25	65	24	63	47	5	7	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3520840--3520914	22	3.3	22	66	23	55	46	5	8	40	1.56
3521252--3521303	19	2.8	19	77	16	56	69	0	3	26	1.06
3525532--3525705	92	1.9	92	93	0	303	23	24	14	37	1.92
3531435--3531492	21	2.6	22	83	5	64	46	1	0	51	1.11
3534193--3534240	20	2.4	20	89	0	78	43	22	10	22	1.84
3541701--3541756	28	2.0	28	92	0	94	35	3	32	28	1.74
3541729--3541837	52	2.1	52	85	0	146	29	6	37	26	1.81
3541729--3541881	52	3.0	52	79	3	132	26	7	37	28	1.83
3541865--3541898	10	3.4	10	95	0	59	23	0	32	44	1.54
3549301--3549343	21	2.0	21	86	4	59	23	30	25	20	1.99

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