genome.fa.s8053.2.7.7.80.10.50.1000.17.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  17  of  32  ( 3749 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)
3198697--3198732	2	18.0	2	94	0	63	47	0	2	50	1.15
3211427--3211513	35	2.4	36	84	5	106	43	17	8	31	1.78
3215536--3215569	16	2.1	16	94	0	59	32	26	8	32	1.87
3216003--3216089	35	2.4	36	84	5	106	43	17	8	31	1.78
3220148--3220204	26	2.2	26	78	9	64	33	1	1	63	1.15
3220867--3220942	40	1.9	40	94	0	134	25	15	17	42	1.88
3225140--3225195	25	2.2	25	90	0	85	21	28	28	21	1.99
3225929--3226015	32	2.8	32	85	5	97	27	26	24	21	1.99
3237640--3237706	34	2.0	33	83	11	84	50	4	0	44	1.22
3239151--3239192	21	2.0	20	86	4	57	38	14	7	40	1.73
3239194--3239232	20	2.0	20	100	0	78	41	10	10	38	1.73
3243757--3243822	23	2.9	23	90	4	107	33	21	12	33	1.90
3257435--3257464	2	15.0	2	100	0	60	50	0	0	50	1.00
3257710--3257791	35	2.3	37	93	4	141	29	0	15	54	1.42
3258887--3259307	204	2.0	215	94	5	747	46	11	12	30	1.77
3260055--3260106	21	2.5	21	84	3	70	40	19	25	15	1.90
3260092--3260169	41	1.9	41	86	0	111	38	21	17	21	1.93
3260095--3260209	20	5.7	20	78	9	90	34	23	18	23	1.96
3260375--3260418	22	2.0	22	95	0	79	20	45	15	18	1.85
3260672--3260730	20	3.0	20	87	0	73	16	18	22	42	1.89
3260865--3260921	25	2.3	24	77	14	62	21	8	17	52	1.71
3262563--3262629	20	3.4	20	81	2	73	38	23	22	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3262563--3262665	19	5.6	19	75	14	72	41	23	21	13	1.88
3262679--3262734	14	3.7	14	76	17	58	12	16	21	50	1.78
3262672--3262750	32	2.4	33	93	2	133	12	18	21	46	1.82
3262735--3262790	20	2.8	19	86	7	76	17	25	21	35	1.95
3264757--3264795	20	2.0	20	89	0	60	46	28	10	15	1.78
3264851--3264928	20	3.9	20	98	0	147	15	23	24	37	1.93
3266584--3266609	6	4.3	6	100	0	52	50	15	0	34	1.45
3272358--3272406	20	2.5	20	86	3	64	30	12	4	53	1.57
3282090--3282249	64	2.5	64	84	6	200	34	17	21	26	1.95
3282741--3282775	18	1.9	18	88	11	54	54	5	17	22	1.64
3286006--3286166	64	2.5	65	86	7	204	33	18	21	26	1.96
3286640--3286674	18	1.9	18	88	11	54	54	5	17	22	1.64
3288334--3288373	21	1.9	21	89	0	62	25	40	25	10	1.86
3298905--3298934	15	1.9	16	93	6	53	40	3	6	50	1.45
3312010--3312064	20	2.7	21	83	13	62	65	1	5	27	1.25
3312274--3312320	21	2.2	21	85	7	60	53	2	2	42	1.25
3315246--3315293	18	2.7	18	90	0	69	35	22	16	25	1.95
3316170--3316284	52	2.2	52	92	0	194	32	21	13	32	1.93
3323694--3323765	16	4.6	16	87	3	103	55	19	11	13	1.68
3323750--3323793	14	3.2	14	90	6	72	50	25	15	9	1.74
3334250--3334325	31	2.5	31	84	0	107	25	22	17	35	1.95
3348596--3348639	21	2.1	21	91	0	70	18	18	29	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3352461--3352499	19	2.1	19	90	9	62	35	10	20	33	1.86
3352537--3352859	160	2.0	163	98	1	625	35	8	20	36	1.82
3355801--3355838	17	2.3	17	86	4	51	28	7	13	50	1.69
3357990--3358029	20	2.0	20	95	0	71	20	32	25	22	1.98
3357990--3358073	21	4.0	21	78	9	82	22	34	23	19	1.96
3361542--3361630	21	4.1	22	77	7	92	21	19	25	33	1.97
3361534--3361599	23	3.0	23	84	6	91	18	22	27	31	1.97
3361534--3361630	44	2.2	43	83	1	113	20	20	24	34	1.97
3362472--3362524	21	2.5	22	87	3	72	43	16	18	20	1.88
3364567--3364680	60	1.9	60	81	3	140	35	17	15	31	1.92
3365038--3365081	3	14.7	3	100	0	88	34	0	0	65	0.93
3371652--3372001	130	2.7	131	88	1	472	42	11	11	34	1.77
3382344--3382419	24	3.2	24	98	0	143	15	23	15	44	1.85
3386652--3386699	9	5.8	9	76	18	59	39	6	29	25	1.80
3386645--3386700	16	3.5	16	95	0	103	41	5	28	25	1.77
3391410--3391467	16	3.6	16	90	0	98	41	6	27	24	1.80
3391410--3391466	7	7.1	8	74	21	57	40	7	28	24	1.81
3408580--3408628	16	3.1	16	80	13	66	34	2	22	40	1.66
3408827--3409138	83	3.8	82	78	8	325	36	15	16	32	1.90
3408830--3409138	166	1.9	163	83	6	399	36	15	16	32	1.90
3413185--3413219	16	2.1	17	89	5	54	71	2	0	25	1.00
3414182--3414221	21	1.9	21	89	0	62	42	15	22	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3420096--3420127	14	2.3	14	94	0	55	50	28	0	21	1.49
3430632--3430665	6	5.7	6	92	0	59	50	29	0	20	1.49
3432957--3433000	9	4.9	9	78	10	54	25	13	31	29	1.94
3432947--3433005	27	2.2	27	96	0	109	25	16	28	28	1.97
3440088--3440134	19	2.5	19	96	0	85	31	12	10	44	1.77
3453340--3453380	13	3.1	13	86	6	55	34	0	2	63	1.08
3453612--3453687	38	2.0	38	92	5	127	19	14	10	55	1.68
3456879--3456920	19	2.2	19	100	0	84	30	9	11	47	1.72
3457917--3457976	31	1.9	31	89	0	93	38	15	21	25	1.92
3458538--3458614	40	1.9	40	89	0	118	22	12	10	54	1.68
3458629--3458672	21	2.1	21	82	0	52	50	4	11	34	1.59
3459248--3459325	31	2.5	31	82	0	93	28	24	10	37	1.88
3460887--3460921	12	2.9	12	91	8	54	57	0	0	42	0.99
3460949--3460991	19	2.2	20	84	12	63	72	6	4	16	1.24
3462317--3462383	3	21.7	3	90	6	107	64	1	0	34	1.03
3462697--3463137	113	3.9	112	93	2	713	29	20	12	37	1.89
3462697--3463137	227	2.0	225	91	1	722	29	20	12	37	1.89
3463880--3464202	84	3.9	84	93	3	555	37	21	13	27	1.91
3465322--3465399	10	7.4	10	73	21	52	2	16	0	80	0.82
3465323--3465405	6	14.0	6	74	15	75	2	16	0	80	0.81
3465323--3465400	22	3.4	22	76	20	70	2	15	0	82	0.79
3476765--3476790	12	2.2	12	100	0	52	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3476816--3476858	19	2.2	20	84	12	63	72	6	4	16	1.24
3477655--3477707	24	2.2	23	83	12	63	5	20	5	67	1.32
3477655--3477707	25	2.1	24	86	6	70	5	20	5	67	1.32
3478181--3478263	3	27.7	3	97	0	157	65	1	0	33	1.01
3482905--3482963	29	2.0	30	83	9	77	27	28	5	38	1.78
3486361--3486392	9	3.6	9	95	0	55	50	12	21	15	1.77
3494468--3494492	2	12.5	2	100	0	50	52	0	0	48	1.00
3495565--3495594	15	2.0	15	93	0	51	83	0	3	13	0.77
3496316--3496350	2	17.5	2	100	0	70	48	0	0	51	1.00
3509052--3509113	23	2.7	23	92	0	106	35	8	19	37	1.81
3509501--3509833	162	2.1	162	90	1	524	26	16	12	44	1.84
3509658--3510056	181	2.2	182	91	3	651	26	15	14	44	1.84
3513715--3514341	200	3.1	197	81	3	752	29	14	14	40	1.86
3513752--3514304	200	2.8	200	85	1	768	28	14	14	42	1.85
3515799--3515853	12	4.8	12	80	13	62	21	30	5	41	1.76
3515802--3515855	18	3.0	18	81	10	65	20	29	7	42	1.79
3517014--3517055	15	2.8	15	75	13	50	30	0	47	21	1.51
3517422--3518896	199	7.4	198	92	0	2326	26	15	15	42	1.86
3519292--3519341	19	2.6	19	96	0	91	60	10	2	28	1.40
3521201--3521236	18	2.0	18	94	0	63	11	47	5	36	1.63
3521467--3521523	24	2.5	22	78	13	71	50	8	0	40	1.33
3522779--3522846	19	3.6	19	89	0	91	35	16	1	47	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3523234--3525844	182	14.3	181	88	3	3595	26	16	12	44	1.83
3523234--3527498	547	7.9	546	92	3	6958	26	16	12	44	1.83
3524363--3524413	20	2.6	18	80	17	57	11	17	13	56	1.66
3525279--3525319	21	1.9	22	95	5	75	14	14	12	58	1.63
3525829--3526180	183	1.9	181	88	2	535	26	15	13	44	1.84
3526332--3526378	20	2.3	21	89	7	71	14	17	12	55	1.70
3526174--3527498	183	7.3	182	88	4	1938	25	16	12	45	1.83
3526174--3527498	364	3.6	363	88	4	1954	25	16	12	45	1.83
3526693--3526738	20	2.3	20	81	7	58	15	13	10	60	1.58
3526878--3526919	21	2.0	22	90	4	68	19	14	9	57	1.64

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