genome.fa.s9001.2.7.7.80.10.50.1000.17.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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   

This is table  17  of  24  ( 2777 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)
3445077--3445163	3	29.3	3	90	2	140	65	1	1	32	1.07
3445399--3445714	133	2.4	134	92	1	528	25	17	31	26	1.97
3445463--3445662	43	4.6	43	67	16	131	24	18	31	26	1.97
3445626--3445703	40	2.0	39	82	7	95	23	19	37	20	1.95
3445720--3445799	28	2.9	28	86	3	99	45	15	16	23	1.85
3445936--3446005	32	2.2	33	86	2	97	34	12	15	37	1.86
3445965--3446071	36	2.9	38	73	8	103	34	13	14	37	1.85
3445936--3446071	74	1.9	73	85	8	190	36	13	16	34	1.87
3446041--3446197	64	2.4	64	85	3	199	42	15	12	28	1.84
3446827--3446956	35	3.6	36	80	8	138	35	14	18	31	1.91
3447280--3447314	16	2.1	17	89	10	54	25	0	22	51	1.48
3454652--3454690	20	2.0	20	94	0	69	66	5	2	25	1.25
3456517--3456552	2	18.5	2	94	5	65	50	0	50	0	1.00
3461330--3461966	320	2.0	320	96	0	1168	30	14	27	27	1.95
3463224--3463258	18	1.9	18	94	0	61	5	8	22	62	1.45
3463636--3463694	31	1.9	31	96	0	109	42	6	8	42	1.61
3466250--3466275	2	13.0	2	100	0	52	50	0	0	50	1.00
3467278--3467316	20	2.0	20	89	0	60	33	10	5	51	1.58
3467473--3467515	20	2.2	20	91	0	68	34	18	30	16	1.93
3468516--3468549	12	2.7	13	90	9	61	41	0	0	58	0.98
3468835--3468871	19	2.0	19	94	5	67	48	0	0	51	1.00
3468802--3468919	60	2.0	60	84	3	157	45	4	1	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3469530--3469560	10	3.1	10	100	0	62	29	0	0	70	0.87
3472494--3472565	3	24.3	3	77	8	76	37	0	0	62	0.95
3472500--3472565	30	2.3	30	89	7	102	39	0	0	60	0.97
3475069--3475115	16	2.9	16	93	0	76	44	12	4	38	1.62
3477309--3477369	9	6.4	10	72	20	51	80	0	18	1	0.80
3477309--3477366	11	5.5	10	76	15	55	79	0	18	1	0.82
3477337--3477373	14	2.7	14	88	12	51	81	0	18	0	0.70
3479560--3479988	37	11.8	36	68	5	252	31	16	12	39	1.86
3479482--3479995	73	7.0	73	90	2	773	32	17	12	38	1.86
3480329--3480356	14	2.0	14	100	0	56	42	7	28	21	1.79
3480348--3480413	20	3.3	20	71	23	66	43	12	21	22	1.85
3481431--3481469	2	19.5	2	100	0	78	51	0	0	48	1.00
3483726--3483782	26	2.2	26	100	0	114	31	14	10	43	1.79
3485156--3485225	5	13.2	5	76	16	61	74	0	2	22	0.95
3485156--3485225	11	6.6	10	78	13	61	74	0	2	22	0.95
3485156--3485291	16	8.3	16	68	18	68	71	2	4	22	1.15
3485156--3485220	28	2.4	28	82	10	82	75	0	3	21	0.94
3485189--3485238	8	6.1	8	76	21	50	72	0	2	26	0.96
3485156--3485243	17	4.9	17	78	18	74	72	0	3	23	0.99
3486840--3486978	37	3.8	37	84	9	189	30	11	17	40	1.85
3487006--3487085	30	2.7	29	81	7	90	36	11	13	38	1.81
3487090--3487158	36	1.9	36	90	0	111	42	14	20	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3487045--3487247	101	2.0	105	87	3	297	35	13	18	31	1.90
3487165--3487241	39	2.0	40	86	2	111	32	16	20	29	1.95
3487244--3487371	36	3.6	36	73	4	123	42	12	15	29	1.84
3487230--3487534	72	4.2	72	90	0	421	40	12	17	28	1.86
3488703--3488884	95	1.9	95	86	4	260	31	18	17	32	1.94
3489500--3489559	25	2.4	25	91	0	102	25	30	11	33	1.91
3492874--3492940	13	4.8	13	76	18	64	76	1	2	19	1.00
3499728--3499885	21	7.8	20	71	7	77	38	24	17	19	1.92
3499852--3500082	40	5.8	40	87	2	126	36	24	19	19	1.95
3499891--3500101	20	10.6	20	83	4	246	35	24	18	20	1.95
3499891--3500101	40	5.3	40	91	1	273	35	24	18	20	1.95
3500784--3500830	24	2.0	24	87	8	69	25	14	21	38	1.92
3501005--3501029	12	2.1	12	100	0	50	72	0	28	0	0.86
3503357--3503454	19	5.4	19	82	13	134	15	22	16	45	1.84
3503338--3503454	53	2.2	53	95	1	218	14	23	17	44	1.85
3503513--3503659	19	8.6	18	72	20	120	43	18	22	15	1.87
3503530--3503584	14	3.6	14	73	21	56	45	20	23	10	1.82
3503513--3503602	33	2.8	32	93	5	153	44	18	23	13	1.85
3503544--3503659	51	2.2	52	92	1	189	44	18	20	16	1.86
3503666--3503765	19	5.5	19	84	12	147	15	23	17	45	1.85
3503649--3503765	53	2.2	53	95	1	209	14	24	17	43	1.86
3503872--3503908	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3505822--3505887	19	3.4	20	87	6	91	45	27	16	10	1.80
3505859--3505950	33	2.8	33	88	1	141	47	21	18	11	1.80
3505951--3506079	19	7.3	19	74	17	116	9	17	28	44	1.79
3505951--3506042	33	2.8	33	90	3	141	8	18	28	44	1.79
3506122--3506502	93	4.1	93	99	0	753	46	18	12	22	1.83
3508204--3508260	14	3.7	14	79	20	69	40	24	26	8	1.84
3508196--3508277	33	2.5	33	89	0	137	46	20	23	9	1.80
3508278--3508363	39	2.4	37	84	11	108	10	22	22	45	1.82
3508301--3508354	19	2.8	20	80	5	65	12	25	20	40	1.88
3508301--3508375	20	3.8	20	78	5	89	13	24	18	44	1.85
3508455--3508525	33	2.2	33	94	0	124	47	16	23	11	1.79
3508707--3508760	21	2.5	22	78	3	65	20	16	38	24	1.92
3508904--3509097	20	9.6	20	82	5	221	19	19	25	35	1.95
3508904--3509097	60	3.2	60	83	0	253	19	19	25	35	1.95
3515878--3515908	15	2.1	15	93	0	53	54	0	0	45	0.99
3517765--3517954	93	2.0	94	91	2	310	45	21	17	15	1.86
3521025--3521092	21	3.2	21	74	0	73	38	20	17	23	1.93
3523058--3523162	24	4.4	24	80	8	126	23	20	24	31	1.98
3523058--3523162	48	2.2	48	85	8	144	23	20	24	31	1.98
3527738--3527798	31	2.0	31	93	0	104	40	16	18	24	1.90
3534636--3534706	31	2.3	31	90	2	108	35	8	26	29	1.86
3534666--3534786	60	2.0	60	83	3	154	38	5	23	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3534662--3534761	31	3.3	31	69	18	84	36	8	23	33	1.84
3534668--3534811	60	2.4	60	78	7	141	39	6	21	31	1.80
3534947--3534972	5	5.2	5	100	0	52	0	19	57	23	1.40
3535045--3535086	2	21.5	2	90	4	68	47	0	2	50	1.14
3537531--3537612	43	1.9	43	82	5	103	28	0	15	56	1.40
3541524--3541559	16	2.2	16	90	0	54	66	0	0	33	0.92
3542102--3542147	22	2.1	22	95	0	83	58	13	8	19	1.60
3546445--3546505	23	2.7	23	92	0	104	26	27	27	18	1.98
3552123--3552184	3	20.0	3	83	6	79	61	0	1	37	1.06
3552312--3553490	76	15.5	76	97	0	2196	35	21	21	21	1.96
3556749--3556937	92	2.0	93	91	3	310	37	20	13	29	1.90
3565786--3565850	3	21.0	3	81	6	76	60	0	1	38	1.07
3565779--3565850	24	3.0	23	86	11	92	58	0	1	40	1.07
3569403--3569449	16	2.9	16	100	0	94	38	17	38	6	1.75
3570075--3570108	2	17.0	2	100	0	68	50	0	0	50	1.00
3575344--3575417	22	3.3	22	77	7	78	32	18	20	28	1.96
3576159--3576192	14	2.4	14	95	0	59	47	8	8	35	1.66
3578714--3578790	22	3.5	22	82	3	91	44	18	12	24	1.85
3582629--3582695	23	2.9	23	84	0	80	29	16	8	44	1.78
3582691--3582734	23	1.9	23	90	0	70	34	13	9	43	1.76
3601920--3601995	36	2.1	36	82	7	91	46	1	3	48	1.29
3602141--3602178	20	1.9	20	88	0	58	21	26	10	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3609379--3609415	2	18.5	2	94	0	65	45	0	2	51	1.15
3609665--3609779	38	3.3	38	64	32	101	50	4	8	36	1.53
3609642--3609787	67	2.2	67	97	0	274	49	3	8	38	1.51
3612252--3612284	14	2.2	16	89	10	52	36	9	0	54	1.32
3612470--3612530	20	3.1	20	73	4	70	32	19	1	45	1.60
3619543--3619602	28	2.1	30	84	12	81	23	11	13	51	1.73
3619729--3619847	44	2.7	44	85	2	141	25	25	19	30	1.98
3620231--3620303	38	1.9	38	85	0	101	20	6	16	56	1.63
3626046--3626139	44	2.1	44	94	2	161	21	22	24	31	1.98
3635254--3635341	16	5.3	15	73	20	61	27	2	1	69	1.08

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