genome.fa.s8001.2.7.7.80.10.50.1000.16.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

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

This is table  16  of  18  ( 2081 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)
3465222--3465313	20	4.6	20	73	2	76	20	18	21	39	1.93
3465298--3465349	20	2.5	21	87	3	70	21	23	17	38	1.93
3465546--3465579	12	2.9	12	86	4	52	17	41	5	35	1.74
3466133--3466186	24	2.2	24	83	0	63	24	18	18	38	1.93
3468671--3468801	19	7.7	19	67	23	103	42	19	23	13	1.87
3468671--3468797	33	3.8	33	90	4	211	42	19	23	14	1.88
3468672--3468804	66	2.0	66	98	0	257	41	19	23	15	1.90
3468826--3468886	19	3.5	19	72	21	69	11	22	21	44	1.84
3468812--3468868	14	3.7	14	72	20	51	10	24	22	42	1.85
3468797--3468886	33	2.7	33	92	0	144	14	22	21	42	1.88
3468993--3469029	14	2.6	15	87	12	60	48	21	0	29	1.50
3470385--3470451	21	3.2	21	68	4	55	19	20	35	23	1.95
3470385--3470507	42	2.9	41	79	7	113	22	17	36	22	1.95
3470725--3470906	91	2.0	90	89	6	276	46	17	13	22	1.83
3472607--3472705	33	3.0	33	92	1	162	40	22	25	12	1.88
3472582--3472727	19	8.1	19	72	17	114	43	19	23	13	1.86
3473304--3473375	20	3.5	20	83	5	74	20	20	22	36	1.96
3473365--3473437	21	3.5	21	75	7	69	35	17	21	24	1.95
3473352--3473546	103	1.9	103	82	4	250	31	18	20	29	1.96
3473360--3473513	41	3.8	40	70	9	114	31	18	19	29	1.96
3473488--3473540	21	2.5	22	81	6	74	33	18	26	20	1.96
3474649--3474704	20	2.8	20	97	0	103	25	26	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3478647--3478716	18	3.7	18	78	14	77	25	31	22	20	1.98
3479764--3479812	25	2.0	25	88	8	73	42	14	0	42	1.45
3480268--3480318	19	2.7	19	100	0	102	27	21	21	29	1.99
3480203--3480379	83	2.1	83	84	8	227	28	18	19	33	1.95
3483611--3483680	18	3.7	18	80	14	86	24	31	24	20	1.98
3485195--3485351	64	2.5	62	80	10	156	29	17	20	33	1.95
3487872--3487896	3	8.3	3	100	0	50	36	0	0	64	0.94
3491048--3491080	15	2.1	17	88	11	52	51	3	0	45	1.16
3491809--3491835	8	3.4	8	100	0	54	33	0	11	55	1.35
3492325--3492374	20	2.5	21	81	15	61	48	0	0	52	1.00
3492398--3492437	2	20.0	2	100	0	80	50	0	0	50	1.00
3492510--3492547	20	2.0	19	90	10	60	50	10	21	18	1.76
3492761--3492802	22	2.0	22	85	4	59	61	0	9	28	1.27
3493384--3493476	21	4.6	20	78	4	96	38	18	24	18	1.92
3493381--3493476	41	2.3	41	98	0	183	39	17	23	18	1.92
3493384--3493476	20	4.6	20	78	4	96	38	18	24	18	1.92
3493403--3493537	41	3.3	41	81	6	123	37	20	21	20	1.94
3493465--3493558	20	4.7	20	80	2	89	34	24	18	23	1.96
3494078--3494144	19	3.5	19	83	2	80	49	23	14	11	1.77
3494140--3494209	19	3.7	19	98	0	131	11	21	21	45	1.83
3494192--3494277	31	2.7	31	89	8	120	13	26	20	38	1.91
3494256--3494302	20	2.3	20	75	13	51	14	25	12	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3496328--3496416	42	2.1	42	81	8	101	23	37	19	20	1.94
3496356--3496416	21	3.0	20	69	7	50	22	39	18	19	1.92
3497770--3497805	14	2.6	14	95	0	63	30	0	25	44	1.54
3497912--3497978	19	3.8	19	72	23	65	44	20	22	11	1.84
3497983--3498100	19	6.7	19	66	19	76	13	23	20	42	1.88
3497987--3498080	33	2.8	33	98	0	179	12	24	19	43	1.85
3501866--3501902	14	2.6	14	86	0	56	48	21	0	29	1.50
3503771--3503837	19	3.5	19	83	4	89	37	23	23	14	1.93
3503826--3503915	14	5.9	14	76	19	90	47	25	17	8	1.77
3503841--3503930	18	5.5	17	75	20	75	46	26	17	8	1.78
3503810--3503920	32	3.4	32	97	1	204	46	24	18	9	1.79
3503926--3504060	19	7.6	19	73	16	85	12	20	23	42	1.86
3503948--3504005	14	3.9	14	79	16	71	8	17	25	48	1.75
3503931--3504021	32	2.8	33	94	3	166	10	18	23	47	1.80
3504006--3504060	20	2.8	19	83	8	65	16	23	23	36	1.94
3504533--3504577	18	2.5	18	85	0	63	15	15	42	26	1.87
3505896--3505933	20	1.9	20	88	0	58	50	21	15	13	1.78
3506409--3506504	20	4.6	22	71	12	69	22	16	21	38	1.93
3506409--3506565	41	3.8	42	80	5	135	21	19	20	38	1.93
3506492--3506581	21	4.4	20	78	4	99	17	23	17	41	1.90
3506492--3506581	41	2.2	41	95	0	162	17	23	17	41	1.90
3506886--3506931	23	2.0	23	83	12	58	34	23	4	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3509053--3509083	16	1.9	16	93	0	53	74	12	6	6	1.21
3510656--3510731	30	2.5	30	80	8	82	57	10	6	25	1.56
3512367--3512416	22	2.3	22	96	0	91	22	18	26	34	1.96
3514485--3514539	18	3.2	17	73	17	51	45	3	0	50	1.19
3514637--3514661	6	4.2	6	100	0	50	0	16	0	84	0.63
3515265--3515338	37	2.0	37	85	12	100	47	0	4	48	1.20
3515491--3515530	20	2.0	20	90	0	62	22	17	10	50	1.76
3517006--3517115	23	4.8	23	75	13	86	45	0	2	50	1.22
3517095--3517176	35	2.4	34	80	9	87	54	1	0	43	1.07
3517101--3517263	28	5.8	27	69	22	95	51	1	0	46	1.13
3517212--3517255	22	2.0	23	86	4	63	54	0	0	45	0.99
3520902--3520934	9	3.8	9	92	8	59	57	0	0	42	0.98
3521333--3521479	36	4.1	36	88	2	224	40	13	19	27	1.89
3521333--3521479	71	2.0	73	89	2	226	40	13	19	27	1.89
3521574--3522157	292	2.0	294	89	2	895	24	18	24	33	1.97
3522080--3522188	43	2.5	42	82	5	112	22	21	25	30	1.99
3521807--3522986	335	3.5	334	91	0	1822	23	18	24	33	1.97
3522428--3522536	43	2.6	41	85	8	146	21	17	32	29	1.96
3522763--3522867	43	2.4	43	82	0	120	22	18	28	30	1.97
3523146--3523220	32	2.3	32	81	4	89	34	25	8	32	1.85
3524246--3524324	10	7.9	10	79	8	63	5	11	1	82	0.89
3524248--3524323	9	7.9	9	80	16	64	5	10	1	82	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3524253--3524288	19	1.9	18	88	5	54	0	16	2	80	0.83
3530501--3530529	13	2.1	14	93	6	51	55	6	3	34	1.44
3533142--3533173	16	2.0	16	100	0	64	56	25	12	6	1.59
3533239--3533313	10	7.7	10	67	21	52	58	21	10	9	1.59
3533246--3533312	16	4.2	16	90	0	98	59	22	8	8	1.55
3533243--3533307	32	2.0	32	93	0	112	58	23	10	7	1.57
3534815--3534876	24	2.6	24	86	0	88	53	22	11	12	1.71
3535450--3535511	30	2.1	31	82	11	76	16	4	20	58	1.56
3538571--3538609	21	1.9	21	89	5	62	38	5	12	43	1.65
3555503--3555578	36	2.1	36	87	4	109	28	19	15	35	1.93
3563608--3563692	42	2.0	42	97	0	161	36	2	16	44	1.61
3566051--3566096	3	15.7	3	86	13	69	32	0	0	67	0.91
3568300--3568342	19	2.3	19	87	0	59	27	6	2	62	1.33
3571635--3571666	15	2.1	15	94	0	55	28	18	6	46	1.73
3579000--3579080	11	7.7	10	79	19	85	83	2	13	0	0.73
3579000--3579079	1	80.0	1	69	0	52	85	2	12	0	0.71
3579001--3579078	6	12.8	6	76	15	72	84	2	12	0	0.72
3578987--3579080	16	6.2	15	73	20	72	81	3	13	1	0.86
3579983--3580765	93	8.4	93	96	0	1390	27	18	20	33	1.96
3581560--3582242	113	6.0	113	81	6	691	37	13	18	29	1.90
3582044--3582321	124	2.3	120	86	5	366	42	15	17	24	1.89
3582469--3582508	3	13.7	3	85	15	57	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3586129--3586166	20	1.9	20	88	0	58	21	23	10	44	1.83
3587315--3587346	7	4.7	7	92	7	57	59	12	0	28	1.34
3587813--3587862	25	2.0	24	85	11	66	50	2	0	48	1.12
3587868--3587908	21	2.0	21	90	0	64	43	0	0	56	0.99
3588623--3588673	22	2.3	22	83	6	59	62	0	0	37	0.95
3588638--3588682	22	2.0	21	87	8	63	53	0	0	46	1.00
3589139--3589185	20	2.3	20	100	0	94	29	12	21	36	1.91
3590992--3591522	255	2.1	244	83	8	631	41	18	12	28	1.86
3592560--3592611	21	2.7	18	72	16	50	78	1	5	13	1.01
3593502--3593538	15	2.5	15	90	0	56	8	67	16	8	1.40

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