genome.fa.s8539.2.7.7.80.10.50.1000.18.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  18  of  31  ( 3630 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)
3248257--3248328	33	2.1	34	97	2	137	13	22	18	45	1.84
3248465--3248572	54	2.0	54	90	0	171	25	23	13	37	1.92
3249451--3249700	76	3.3	75	83	3	304	31	23	14	31	1.94
3249675--3249770	39	2.4	39	82	1	102	25	26	11	37	1.89
3250798--3250953	64	2.5	63	87	5	217	32	15	22	30	1.95
3250959--3251015	20	2.8	20	94	0	96	28	21	26	24	1.99
3252602--3252699	45	2.2	45	84	12	123	26	18	23	31	1.97
3258210--3258247	20	1.9	20	88	0	58	26	18	28	26	1.98
3260170--3260370	72	2.7	72	84	9	246	31	16	21	29	1.96
3262450--3262532	42	2.0	42	82	0	103	20	18	12	49	1.79
3262938--3263025	43	2.0	43	85	8	117	40	23	9	26	1.84
3264891--3264968	3	25.0	3	84	5	93	62	1	2	33	1.17
3270443--3270496	24	2.2	25	90	6	92	18	12	33	35	1.89
3276943--3276997	26	2.2	25	87	9	76	25	12	27	34	1.92
3278307--3278338	2	16.0	2	93	0	55	46	0	3	50	1.17
3279281--3279305	2	12.5	2	100	0	50	52	0	0	48	1.00
3283308--3283347	14	3.0	13	82	7	53	45	20	20	15	1.86
3283365--3283415	14	3.6	14	81	0	57	29	19	23	27	1.98
3283365--3283426	28	2.2	29	85	2	81	27	16	25	30	1.96
3288212--3288271	33	1.9	30	83	10	75	33	11	3	51	1.55
3291806--3291866	20	3.2	19	75	15	63	72	1	22	3	1.09
3291814--3291911	24	4.0	24	81	7	83	71	3	22	3	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3291831--3291901	25	2.9	24	87	6	97	67	2	26	2	1.18
3294000--3294383	54	7.1	54	76	8	309	30	10	17	40	1.83
3295863--3296075	117	1.8	117	88	0	327	36	14	23	25	1.93
3296107--3296742	158	4.0	158	76	7	618	34	17	18	29	1.94
3296444--3296786	158	2.2	158	82	3	395	35	17	18	27	1.94
3296763--3296876	42	2.7	42	82	8	131	32	21	15	30	1.94
3297575--3297727	42	3.7	42	82	1	175	29	24	17	28	1.97
3301238--3301309	32	2.2	32	85	0	90	25	26	25	23	2.00
3304827--3304882	17	3.4	17	85	7	62	21	5	3	69	1.24
3304839--3304882	17	2.5	18	85	7	63	20	6	4	68	1.31
3304827--3304868	5	8.0	5	84	10	57	21	2	2	73	1.06
3305293--3305325	14	2.4	14	90	10	50	27	24	0	48	1.51
3306228--3306263	15	2.4	15	100	0	72	19	11	19	50	1.77
3307908--3307981	30	2.5	30	88	0	121	55	12	8	24	1.63
3308047--3308122	40	1.9	40	100	0	152	43	23	9	23	1.82
3315682--3315886	108	1.9	108	82	3	261	39	17	15	27	1.90
3326366--3326401	19	1.9	19	88	5	56	52	11	0	36	1.37
3326949--3326973	3	8.3	3	100	0	50	0	0	32	68	0.90
3331093--3331138	18	2.5	17	89	10	65	19	4	0	76	0.96
3331093--3331146	19	2.8	18	86	10	72	20	3	0	75	0.95
3331093--3331147	20	2.9	19	82	15	69	21	3	0	74	0.97
3339835--3339864	8	3.8	8	90	0	51	26	3	0	70	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3339832--3339864	16	2.1	16	100	0	66	24	6	0	69	1.10
3339922--3339974	20	2.6	19	74	11	52	83	5	9	1	0.89
3341698--3341742	19	2.4	18	82	13	56	22	4	0	73	1.01
3346655--3346693	19	2.1	19	90	4	62	84	2	12	0	0.72
3346655--3346713	20	3.1	18	83	9	64	79	1	11	6	0.99
3346655--3346751	29	3.3	28	73	15	72	78	1	8	12	1.01
3346688--3346749	10	5.9	10	85	14	72	74	0	6	19	1.03
3346744--3346777	17	1.9	18	88	5	52	70	0	14	14	1.17
3349292--3349763	162	2.9	162	79	5	490	38	15	18	27	1.91
3350424--3350476	21	2.5	21	96	0	97	33	24	16	24	1.96
3350760--3350814	26	2.0	27	83	13	69	38	18	10	32	1.85
3351139--3351180	19	2.2	19	86	0	57	16	26	19	38	1.92
3371114--3371175	27	2.2	28	83	13	76	25	8	20	45	1.79
3371124--3371181	27	2.1	27	87	6	82	24	8	18	48	1.76
3372048--3372078	12	2.6	12	100	0	62	19	45	25	9	1.81
3376763--3376844	18	4.6	18	87	0	119	18	23	31	26	1.97
3380229--3380266	20	1.9	20	94	0	67	23	21	15	39	1.92
3382346--3382626	95	3.0	93	83	4	357	37	16	16	30	1.91
3382967--3383019	21	2.5	21	87	0	79	32	32	18	16	1.94
3383031--3383165	21	6.4	21	76	13	143	20	20	25	33	1.97
3383015--3383095	44	1.9	40	90	9	126	20	22	22	34	1.97
3383023--3383156	19	6.5	19	75	13	106	22	20	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3383023--3383156	63	2.2	62	89	2	198	22	20	23	33	1.97
3383071--3383180	42	2.7	42	92	2	179	20	19	24	35	1.96
3383916--3383949	5	6.6	5	89	3	50	0	23	55	20	1.43
3384046--3384374	21	15.8	21	71	16	172	34	24	18	21	1.96
3384050--3384327	42	6.7	42	85	6	252	35	24	18	21	1.96
3384096--3384247	63	2.4	64	91	4	206	36	23	19	21	1.95
3384046--3384368	105	3.1	103	88	5	456	34	24	18	21	1.96
3384134--3384327	61	3.1	63	89	4	270	35	24	19	21	1.96
3398364--3398393	15	2.0	15	93	0	51	56	13	0	30	1.37
3400558--3400605	23	2.1	23	88	0	69	35	2	25	37	1.68
3407168--3407199	2	16.0	2	100	0	64	50	0	0	50	1.00
3407597--3407624	3	9.3	3	100	0	56	64	0	0	35	0.94
3411188--3411223	13	2.8	13	91	4	56	0	11	0	88	0.50
3411188--3411223	12	2.9	12	88	8	54	0	11	0	88	0.50
3415556--3415587	16	2.0	16	100	0	64	18	31	12	37	1.88
3417890--3418049	65	2.5	63	86	6	214	30	24	19	26	1.98
3418021--3418069	19	2.6	19	84	9	57	24	28	20	26	1.99
3421655--3421735	24	3.6	23	70	23	73	22	22	23	32	1.98
3423241--3423284	21	2.1	21	82	0	52	9	43	15	31	1.79
3424372--3424524	65	2.4	63	84	6	200	31	23	17	27	1.97
3424502--3424544	19	2.4	19	84	7	54	23	27	20	27	1.99
3424372--3424544	64	2.7	63	78	11	172	30	24	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3428455--3428484	14	2.1	14	93	0	51	76	0	0	23	0.78
3432323--3432361	18	2.3	17	86	8	53	53	2	12	30	1.52
3437210--3437238	12	2.4	12	100	0	58	6	6	58	27	1.50
3443813--3443892	21	3.8	22	77	11	78	23	36	25	15	1.93
3444192--3444241	25	2.0	25	88	11	77	56	4	4	36	1.37
3450040--3450074	14	2.5	14	95	0	61	22	0	0	77	0.78
3450040--3450073	17	2.1	16	94	5	59	20	0	0	79	0.73
3451843--3452166	178	1.8	177	84	2	443	36	16	13	33	1.87
3455784--3455816	12	2.8	12	100	0	66	27	0	6	66	1.15
3460174--3460217	21	2.1	21	91	0	70	38	15	11	34	1.84
3467137--3467196	2	30.5	2	96	3	113	48	0	0	51	1.00
3467135--3467220	16	5.4	17	86	10	62	43	0	4	52	1.22
3468192--3468225	12	2.8	12	90	4	50	26	2	5	64	1.30
3470126--3470165	18	2.2	18	95	0	71	22	17	32	27	1.96
3471839--3471879	18	2.3	18	87	4	57	60	2	7	29	1.36
3472029--3472144	51	2.3	52	79	8	123	25	28	27	18	1.98
3472072--3472186	51	2.3	51	83	3	133	20	28	35	14	1.93
3472521--3472569	23	2.0	25	84	7	66	53	8	18	20	1.70
3474135--3474182	2	24.0	2	100	0	96	50	0	0	50	1.00
3475034--3475074	22	1.9	21	85	14	57	19	0	31	48	1.49
3477058--3477150	31	3.0	29	79	14	98	27	18	19	34	1.95
3480037--3480076	18	2.2	18	86	8	55	45	5	17	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481134--3481167	17	2.0	17	88	0	50	58	0	29	11	1.33
3482583--3482678	31	3.1	30	82	8	122	23	17	23	34	1.96
3483542--3483600	25	2.4	25	94	0	100	40	6	15	37	1.74
3485234--3485295	16	3.9	16	95	0	106	19	19	19	41	1.90
3489056--3489151	44	2.2	44	88	1	138	57	11	6	25	1.57
3489421--3489473	25	2.1	25	96	0	97	28	32	15	24	1.95
3492203--3492241	20	1.9	20	84	5	51	64	2	0	33	1.08
3492304--3492370	29	2.3	29	84	0	80	19	29	29	20	1.97
3492417--3492446	15	2.0	15	93	0	51	6	56	13	23	1.60
3492564--3492634	36	1.9	36	82	2	88	40	11	21	26	1.87

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