genome.fa.s8531.2.7.7.80.10.50.1000.17.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

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

This is table  17  of  19  ( 2279 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)
3265499--3265537	20	2.0	20	89	0	60	33	10	23	33	1.88
3269180--3269278	43	2.3	42	82	6	110	28	15	23	33	1.95
3269288--3269568	44	6.4	44	83	0	348	33	17	20	28	1.95
3269275--3269568	132	2.2	132	87	0	399	32	17	21	28	1.96
3275850--3275918	36	1.9	36	96	0	129	28	10	17	43	1.81
3283969--3283997	12	2.4	12	100	0	58	86	0	0	13	0.58
3283952--3283991	20	2.1	19	85	4	53	80	2	2	15	0.93
3284890--3285466	103	5.6	103	79	8	572	29	3	11	54	1.53
3284886--3285466	212	2.8	207	84	7	713	29	3	11	54	1.53
3285509--3285540	3	10.7	3	100	0	64	34	0	0	65	0.93
3285506--3285579	18	4.7	15	75	20	55	39	0	0	60	0.97
3288088--3288204	27	4.3	27	84	4	139	36	17	6	39	1.76
3288088--3288204	54	2.2	54	92	0	189	36	17	6	39	1.76
3291036--3291076	19	2.2	19	86	8	57	53	4	0	41	1.22
3291216--3291771	295	1.9	296	89	2	868	43	10	5	41	1.61
3293461--3293552	18	4.9	19	82	2	89	36	15	25	22	1.93
3297903--3297956	19	2.8	19	85	0	72	33	16	27	22	1.95
3300107--3300137	16	2.0	16	93	6	55	51	6	9	32	1.60
3301697--3301795	19	5.2	18	78	8	90	28	16	33	22	1.95
3301697--3301790	38	2.5	38	85	3	118	28	15	32	22	1.95
3304828--3304881	23	2.3	23	96	0	99	42	31	9	16	1.80
3306037--3306072	17	2.1	18	89	5	56	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3306389--3306422	11	3.0	11	87	8	50	67	2	2	26	1.19
3308064--3308105	3	14.0	3	90	9	68	64	0	0	35	0.94
3308053--3308103	21	2.5	22	84	12	72	58	0	0	41	0.98
3308372--3308434	21	2.9	23	68	15	62	17	23	23	34	1.96
3308431--3308598	45	3.7	45	93	0	264	35	19	21	24	1.96
3308532--3308725	75	2.6	75	91	0	318	36	18	21	24	1.95
3309390--3309455	22	3.0	22	82	4	80	33	13	16	36	1.88
3310782--3310960	74	2.4	75	84	7	222	29	22	15	32	1.95
3312974--3313115	72	2.0	72	91	2	232	36	16	19	27	1.93
3315471--3315550	14	5.8	14	71	14	58	60	8	11	20	1.57
3315486--3315555	35	2.0	34	86	2	95	61	7	11	20	1.53
3315615--3315655	6	6.0	7	78	16	50	58	12	14	14	1.63
3315608--3315651	13	3.2	13	83	6	52	63	11	11	13	1.52
3315733--3315814	43	1.9	43	92	0	137	35	21	10	31	1.89
3316281--3316352	36	2.0	36	91	0	117	27	11	20	40	1.87
3317714--3317765	26	2.0	26	88	3	77	40	0	0	59	0.97
3318061--3318094	11	3.0	11	87	8	50	67	0	2	29	1.05
3318061--3318095	12	3.0	12	91	4	54	65	0	2	31	1.07
3318367--3318406	6	6.7	6	94	0	62	62	0	0	37	0.95
3319676--3319709	3	11.0	3	93	6	59	64	0	0	35	0.94
3319667--3319715	19	2.6	19	80	3	64	59	0	0	40	0.98
3321199--3321238	21	2.0	20	90	5	62	52	2	0	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3328843--3328880	14	2.7	14	91	0	67	34	0	26	39	1.57
3330098--3330129	7	4.2	8	92	8	50	15	0	0	84	0.63
3330100--3330126	7	3.9	7	100	0	54	11	0	0	88	0.50
3334617--3334689	23	3.2	23	92	0	119	38	21	5	34	1.77
3335106--3335178	23	3.2	23	86	0	101	38	19	5	36	1.75
3334215--3337324	490	6.4	489	96	0	5639	39	10	7	41	1.69
3335605--3335668	23	2.8	23	92	0	101	35	21	4	37	1.75
3336096--3336158	23	2.7	23	95	0	108	36	22	4	36	1.75
3334215--3337324	979	3.2	980	96	0	5676	39	10	7	41	1.69
3336576--3336648	23	3.2	23	90	3	103	39	20	5	34	1.76
3337065--3337129	23	2.8	23	92	0	112	38	21	6	33	1.78
3340027--3340271	120	2.0	120	93	0	418	38	16	13	31	1.87
3339862--3340642	303	2.6	303	97	0	1481	34	17	14	33	1.90
3340330--3340576	120	2.1	120	92	0	404	38	15	13	32	1.87
3341867--3341917	3	17.0	3	83	0	57	23	33	5	37	1.79
3341871--3341934	12	5.3	12	86	0	74	20	32	7	39	1.81
3341871--3341934	6	10.7	6	82	0	56	20	32	7	39	1.81
3343419--3344174	200	3.8	200	95	1	1329	32	18	14	34	1.91
3343419--3344174	401	1.9	399	94	1	1327	32	18	14	34	1.91
3344236--3344296	19	3.3	18	88	2	59	52	11	1	34	1.47
3344248--3344296	19	2.6	19	96	0	89	55	10	2	32	1.45
3346089--3346153	33	2.0	33	87	0	94	26	47	0	26	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346187--3346251	21	3.1	21	93	0	103	16	30	10	41	1.83
3348483--3348529	20	2.4	19	82	10	67	19	17	10	53	1.72
3348664--3348710	20	2.4	19	79	10	58	21	17	8	53	1.70
3348450--3348922	181	2.6	182	90	0	723	26	17	14	42	1.87
3351189--3351224	14	2.6	14	90	0	54	30	27	16	25	1.97
3354894--3354927	15	2.3	15	100	0	68	32	26	11	29	1.92
3356918--3356976	27	2.1	28	81	9	68	47	16	11	23	1.80
3357870--3357899	2	15.0	2	100	0	60	50	0	0	50	1.00
3359924--3359970	24	1.9	25	86	4	69	57	0	0	42	0.98
3359898--3359977	32	2.4	34	78	12	87	53	0	2	43	1.14
3359927--3359979	24	2.4	22	77	20	56	56	0	0	43	0.99
3362953--3362987	19	1.9	19	88	11	56	62	5	0	31	1.18
3362965--3363029	21	2.9	23	75	15	64	70	3	0	26	1.01
3362954--3363024	21	3.3	20	76	16	61	70	4	0	25	1.05
3363021--3363070	19	2.5	19	81	15	57	70	4	0	26	1.05
3363018--3363072	18	2.8	20	78	15	53	70	3	0	25	1.03
3363032--3363072	18	2.2	19	87	12	59	68	2	0	29	1.03
3363878--3363928	15	3.3	15	78	21	52	29	0	3	66	1.09
3365080--3365121	18	2.3	19	84	12	61	64	0	2	33	1.07
3370328--3370356	12	2.4	12	100	0	58	13	6	0	79	0.93
3376542--3376566	9	2.8	9	100	0	50	92	0	8	0	0.40
3377183--3377221	20	2.0	20	89	0	60	33	10	23	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3383537--3383590	19	2.8	19	77	2	54	22	29	18	29	1.97
3383562--3383617	25	2.2	26	75	9	62	23	23	16	37	1.93
3385498--3385563	2	33.0	2	100	0	132	50	0	0	50	1.00
3385703--3385757	23	2.4	23	96	0	101	38	25	21	14	1.92
3385703--3385811	23	5.0	21	80	6	76	37	23	18	20	1.94
3388293--3388347	24	2.3	24	93	0	92	32	7	9	50	1.61
3391137--3391171	3	11.3	3	87	6	52	62	2	2	31	1.24
3391484--3391700	117	1.9	117	89	1	337	25	24	13	35	1.93
3391568--3392149	203	2.9	202	88	1	851	27	19	19	33	1.96
3393337--3393392	28	2.0	28	96	0	103	32	3	19	44	1.68
3401440--3401471	2	16.0	2	100	0	64	50	0	0	50	1.00
3403202--3403235	2	17.0	2	100	0	68	50	0	0	50	1.00
3404029--3404178	29	5.2	28	72	7	95	36	6	7	49	1.57
3408890--3408918	2	14.5	2	100	0	58	51	0	0	48	1.00
3412661--3412726	2	33.0	2	100	0	132	50	0	0	50	1.00
3413105--3413166	23	2.7	23	82	7	81	30	27	24	17	1.97
3414511--3414633	64	1.9	64	83	1	158	26	15	21	36	1.93
3416445--3416497	20	2.7	20	88	5	72	45	24	16	13	1.83
3416506--3416719	20	10.6	20	81	6	198	38	25	17	19	1.93
3416506--3416717	41	5.2	41	81	3	259	38	25	16	19	1.92
3417277--3417355	20	3.9	21	86	5	94	51	17	18	11	1.75
3417277--3417398	20	6.5	19	73	13	83	49	20	18	11	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3417394--3417520	20	7.1	19	70	20	85	11	23	20	44	1.85
3417416--3417471	14	3.6	14	74	21	58	8	25	23	42	1.82
3417399--3417520	33	3.5	33	85	8	154	11	22	20	45	1.83
3417589--3417652	25	2.6	25	100	0	128	18	10	18	51	1.75
3419223--3419602	94	4.1	94	96	1	665	21	12	18	46	1.82
3419691--3419740	20	2.5	20	96	0	91	18	20	24	38	1.93
3420224--3420328	21	5.0	21	74	3	95	20	37	19	22	1.95
3420221--3420331	42	2.6	42	78	5	118	20	37	18	22	1.94
3421689--3421724	14	2.6	14	90	0	54	30	0	22	47	1.52
3421822--3421862	20	2.1	20	86	4	57	36	21	26	14	1.93

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