genome.fa.s8323.2.7.7.80.10.50.1000.17.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  17  of  26  ( 3017 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)
3351773--3351825	25	2.0	27	85	10	74	49	5	5	39	1.50
3352924--3352967	21	2.1	21	82	0	52	9	38	15	36	1.80
3353524--3353548	2	12.5	2	100	0	50	48	0	0	52	1.00
3357440--3357478	15	2.6	15	87	0	60	56	10	17	15	1.66
3359716--3359805	32	2.9	31	80	6	101	57	8	13	20	1.62
3359749--3359813	32	2.0	32	90	0	103	55	9	10	24	1.63
3363306--3363429	45	2.7	44	78	9	133	25	18	12	44	1.84
3363402--3363496	46	2.1	46	90	5	149	24	22	7	46	1.77
3363864--3363943	31	2.6	30	80	11	90	42	1	3	52	1.27
3363897--3363946	20	2.5	20	78	12	59	40	2	2	56	1.22
3365169--3365742	55	10.5	55	86	4	691	28	19	18	33	1.95
3366230--3366282	20	2.6	21	82	14	67	24	24	16	33	1.96
3368674--3368712	2	19.5	2	100	0	78	48	0	0	51	1.00
3368932--3369090	20	7.8	20	67	14	101	15	20	24	39	1.91
3368939--3369093	41	3.8	41	92	3	242	14	20	25	39	1.91
3369000--3369066	21	3.2	21	68	19	68	14	20	26	37	1.92
3369179--3369240	6	11.3	6	94	5	82	29	53	17	0	1.44
3369183--3369240	15	3.6	17	88	11	79	27	53	18	0	1.45
3370063--3370174	21	5.4	21	63	19	65	37	25	21	16	1.93
3370054--3370263	41	5.1	41	88	4	266	40	23	19	17	1.91
3370084--3370238	20	7.6	20	64	15	75	40	25	20	14	1.89
3371079--3371203	60	2.1	60	80	0	133	39	12	40	7	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371850--3371877	2	14.0	2	100	0	56	50	0	0	50	1.00
3373160--3373274	57	2.0	57	100	0	230	37	17	8	36	1.81
3381991--3382217	113	2.0	113	100	0	454	29	18	22	29	1.97
3387238--3387307	29	2.4	28	79	6	77	20	0	32	47	1.50
3387238--3387308	15	4.9	15	69	17	51	19	0	32	47	1.50
3387433--3387521	45	2.0	45	97	0	169	26	32	12	28	1.92
3391335--3391473	59	2.4	59	78	7	149	31	13	19	35	1.91
3391545--3391631	44	1.9	46	83	4	115	40	1	9	49	1.42
3391930--3391983	22	2.3	23	78	15	58	40	3	0	55	1.17
3395568--3395621	24	2.3	25	78	12	69	59	7	0	33	1.25
3395867--3395919	21	2.5	21	81	6	72	20	26	18	33	1.96
3395909--3395960	21	2.5	21	81	3	61	38	19	25	17	1.93
3395946--3396023	41	1.9	41	94	0	138	37	25	17	19	1.94
3395949--3396036	20	4.3	20	83	8	106	32	27	18	21	1.96
3395991--3396043	20	2.7	20	93	0	79	28	26	20	24	1.99
3396514--3396572	20	3.0	20	87	0	73	16	18	22	42	1.89
3397885--3397932	18	2.7	18	93	0	87	27	45	12	14	1.81
3398510--3398592	19	4.6	19	75	14	86	48	19	18	14	1.81
3398604--3398662	14	3.9	14	76	20	64	10	16	23	49	1.77
3398599--3398681	33	2.5	33	96	0	148	12	18	20	49	1.79
3398620--3398697	19	4.4	19	76	15	94	14	19	19	47	1.82
3398704--3398744	21	2.0	21	95	0	73	29	12	26	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3399076--3399144	21	3.3	20	74	6	66	24	40	15	18	1.90
3399066--3399156	41	2.2	42	88	2	139	21	41	15	20	1.89
3400568--3400606	14	2.8	14	84	0	51	35	0	17	46	1.49
3400733--3400786	14	3.5	14	75	22	54	46	20	22	11	1.82
3400746--3400791	14	2.8	17	75	25	53	45	19	21	13	1.84
3403013--3403037	12	2.1	12	100	0	50	0	28	0	72	0.86
3403212--3403265	24	2.2	24	90	0	81	40	20	16	22	1.91
3404016--3404162	20	7.3	20	86	6	172	23	19	27	29	1.98
3405355--3405437	29	2.9	29	87	3	114	16	28	31	22	1.96
3411642--3411688	20	2.3	20	88	0	67	46	8	27	17	1.76
3414207--3414295	18	4.9	18	95	0	160	26	35	22	14	1.93
3418414--3418511	18	5.3	18	91	6	153	19	22	9	48	1.76
3425803--3425880	35	2.2	35	80	13	90	53	10	8	26	1.64
3426099--3426157	3	19.7	3	82	0	64	8	35	23	32	1.85
3427907--3428128	111	2.0	111	93	0	381	46	11	6	35	1.66
3428777--3428828	20	2.6	20	96	0	95	38	26	13	21	1.90
3428818--3428916	21	4.8	20	72	6	72	36	23	19	21	1.95
3428883--3429076	20	9.6	20	81	5	221	35	25	19	19	1.95
3428883--3429076	60	3.2	60	83	0	253	35	25	19	19	1.95
3429459--3429529	33	2.2	33	92	0	115	11	22	18	47	1.80
3429650--3429704	14	3.6	14	73	21	56	40	23	27	9	1.85
3429650--3429720	33	2.2	33	92	0	115	42	25	23	8	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3429716--3429813	19	5.7	19	70	22	81	10	24	22	42	1.84
3429738--3429827	14	5.7	14	74	23	81	8	25	23	42	1.83
3429721--3429835	33	3.5	33	95	0	212	9	24	20	45	1.81
3431240--3431285	18	2.6	18	100	0	92	28	21	10	39	1.87
3431290--3431669	93	4.1	93	98	0	735	22	12	18	46	1.83
3431290--3431671	185	2.1	186	97	0	739	22	12	18	46	1.83
3431713--3431841	19	7.3	19	75	17	125	45	28	17	8	1.77
3431749--3431841	33	2.8	32	91	4	150	46	27	18	7	1.76
3431713--3431841	52	2.5	52	74	14	140	45	28	17	8	1.77
3431837--3431971	19	7.6	19	76	16	137	10	19	24	45	1.81
3431859--3431915	14	3.7	14	77	20	60	8	21	24	45	1.80
3431842--3431934	33	2.8	33	98	0	177	9	20	22	47	1.79
3433789--3433861	38	1.9	38	97	0	137	28	1	16	53	1.51
3433784--3433848	19	3.4	19	64	8	51	24	1	15	58	1.46
3433843--3433878	14	2.6	14	95	0	63	33	0	22	44	1.53
3433985--3434086	19	5.6	19	84	13	151	44	17	23	14	1.86
3434115--3434440	19	18.4	19	80	15	396	14	20	17	47	1.82
3434093--3434412	52	6.0	52	93	4	541	14	21	16	47	1.83
3434115--3434440	71	4.6	72	81	13	380	14	20	17	47	1.82
3434093--3434412	161	2.0	157	93	3	543	14	21	16	47	1.83
3434138--3434440	33	8.7	33	79	13	272	14	20	17	47	1.83
3436746--3436770	12	2.1	12	100	0	50	0	28	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3436945--3436991	24	2.0	24	87	8	69	38	21	14	25	1.92
3437665--3438033	20	18.5	20	86	4	458	20	18	26	34	1.96
3450879--3450998	44	2.8	43	85	2	161	35	23	13	28	1.92
3481240--3481275	9	4.1	9	85	7	56	33	0	8	58	1.28
3481241--3481279	17	2.4	17	91	4	62	33	0	7	58	1.26
3483593--3483662	33	2.1	33	84	10	90	22	1	14	61	1.41
3483606--3483676	34	2.1	34	86	5	99	19	2	14	63	1.42
3484731--3484767	17	2.2	17	100	0	74	32	18	13	35	1.90
3488353--3488695	138	2.5	137	79	5	345	23	23	15	37	1.93
3490556--3490604	22	2.2	22	85	10	64	36	8	10	44	1.68
3493431--3493481	25	2.0	25	92	0	84	43	15	7	33	1.76
3497153--3497213	7	8.4	7	74	13	52	32	1	0	65	1.02
3501791--3501832	21	2.0	21	85	0	57	9	50	16	23	1.75
3502176--3502294	56	2.1	56	98	0	229	48	12	11	26	1.75
3503343--3503379	2	19.0	2	94	5	67	48	0	0	51	1.00
3503344--3503377	17	2.0	17	100	0	68	47	0	0	52	1.00
3503343--3503380	19	2.0	19	100	0	76	47	0	0	52	1.00
3504175--3504203	4	7.2	4	100	0	58	24	0	0	75	0.80
3504228--3504268	19	2.0	21	86	9	59	41	4	2	51	1.36
3504707--3505156	229	2.0	228	94	1	785	45	8	7	39	1.61
3505222--3505268	20	2.4	19	89	10	76	55	10	17	17	1.69
3505389--3505435	20	2.4	19	79	10	58	55	8	17	19	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3507734--3507799	33	2.0	33	87	0	96	28	1	45	24	1.62
3509595--3509638	19	2.4	19	92	3	72	31	2	9	56	1.43
3509721--3511137	199	7.1	199	97	0	2610	37	15	15	32	1.88
3509721--3511137	396	3.6	397	96	0	2624	37	15	15	32	1.88
3509721--3511137	595	2.4	595	97	0	2651	37	15	15	32	1.88
3512602--3512693	12	7.4	12	78	11	69	36	7	33	21	1.82
3512614--3512696	15	5.7	15	78	13	84	37	6	33	22	1.79
3512610--3512693	27	3.1	27	81	6	107	36	7	33	22	1.82
3514063--3514918	184	4.7	184	98	0	1622	35	14	15	34	1.89
3517477--3517539	23	2.7	23	90	0	90	36	6	19	38	1.77

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