genome.fa.s8310.2.7.7.80.10.50.1000.13.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: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3887810

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

This is table  13  of  15  ( 1695 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)
3292039--3292119	39	2.1	39	88	6	121	50	8	3	37	1.51
3292231--3292287	2	29.0	2	86	10	73	52	1	1	43	1.21
3295915--3295957	3	14.7	3	95	4	79	69	0	0	30	0.88
3296787--3297020	39	6.2	39	77	9	202	42	5	10	41	1.63
3296999--3297042	22	2.0	22	100	0	88	50	4	9	36	1.55
3297124--3297156	15	2.1	16	94	5	59	12	0	12	75	1.04
3298517--3298570	18	2.9	18	80	2	63	31	1	3	62	1.23
3312249--3312279	16	2.0	16	93	6	55	25	45	0	29	1.54
3312332--3312384	2	27.0	2	96	3	99	50	0	0	49	1.00
3314245--3314274	13	2.3	13	94	0	51	60	0	26	13	1.34
3328059--3328372	37	8.4	36	74	14	262	43	4	9	42	1.57
3328129--3328169	15	2.6	16	84	11	57	43	0	4	51	1.23
3328153--3328372	36	5.9	37	72	17	141	43	5	9	41	1.60
3328075--3328362	78	3.8	73	75	12	231	44	4	9	42	1.57
3328065--3328362	114	2.6	113	83	7	347	43	4	9	42	1.56
3328411--3328453	21	2.0	21	86	8	61	16	2	2	79	0.95
3329625--3329671	19	2.4	20	73	16	53	25	4	0	70	1.05
3329632--3329665	11	2.9	12	86	8	52	17	5	0	76	0.98
3329779--3329829	19	2.7	18	84	6	66	27	1	3	66	1.20
3332996--3333041	17	2.7	17	82	0	65	13	21	28	36	1.91
3340513--3340634	59	2.1	59	87	0	172	28	16	22	31	1.96
3366257--3366379	52	2.4	52	94	0	210	27	12	30	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3367152--3367320	39	4.3	39	77	5	146	26	30	7	36	1.84
3367152--3367322	78	2.2	78	84	4	211	25	30	7	35	1.84
3370974--3371000	14	1.9	14	100	0	54	48	7	22	22	1.75
3374106--3374162	10	5.6	10	78	12	53	68	5	5	21	1.29
3374109--3374172	31	2.0	31	82	8	76	67	4	7	20	1.35
3378691--3378770	40	2.0	41	85	5	108	27	15	25	32	1.95
3378741--3378856	43	2.7	42	80	9	135	19	17	27	35	1.94
3378848--3378942	43	2.2	43	83	3	111	28	12	27	31	1.93
3379325--3379367	21	2.0	21	86	0	59	2	32	18	46	1.62
3388504--3388901	42	9.7	42	74	10	157	32	16	20	29	1.95
3388618--3388801	40	4.6	40	74	8	156	35	15	17	31	1.91
3388559--3388841	122	2.3	122	88	1	415	32	16	19	30	1.94
3388874--3388929	28	2.0	28	89	0	85	37	14	19	28	1.91
3388902--3389052	40	3.7	40	77	10	146	31	19	19	29	1.96
3389619--3389665	2	24.0	2	95	4	87	48	0	0	51	1.00
3395037--3395062	13	2.0	13	100	0	52	61	0	0	38	0.96
3403151--3403181	13	2.4	13	100	0	62	29	9	0	61	1.28
3403730--3403838	55	2.0	55	83	0	137	33	19	10	36	1.85
3403989--3404126	72	1.9	72	89	0	213	24	21	7	45	1.78
3404030--3404126	26	4.0	26	72	15	89	22	22	8	46	1.78
3404055--3404311	46	5.6	46	83	2	302	23	23	9	43	1.82
3404056--3404312	92	2.8	93	87	1	365	23	23	9	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3404062--3404311	138	1.8	138	88	0	383	22	23	9	44	1.82
3404735--3404827	42	2.2	41	86	5	125	25	25	12	35	1.92
3407052--3407099	24	2.0	24	87	4	69	79	4	10	6	1.05
3407033--3407086	20	2.8	20	91	2	83	79	3	12	3	1.00
3417300--3417417	36	3.2	36	66	17	89	17	4	37	40	1.70
3417297--3417444	74	2.0	74	93	0	251	24	4	35	35	1.77
3418895--3418946	10	5.7	10	80	19	53	44	0	0	55	0.99
3418898--3418948	12	4.2	12	87	2	75	45	0	0	54	0.99
3419338--3419390	21	2.5	21	96	0	97	28	26	9	35	1.87
3426655--3426709	22	2.5	22	90	0	92	30	9	14	45	1.76
3427914--3427964	12	4.2	12	79	2	57	43	1	0	54	1.11
3427913--3427961	24	2.0	25	88	4	73	44	2	0	53	1.12
3433828--3433871	10	4.4	9	81	18	52	2	22	0	75	0.92
3450477--3450516	14	2.9	14	92	0	71	32	17	15	35	1.91
3454148--3454252	25	4.2	25	91	0	156	31	22	16	29	1.96
3454404--3454565	63	2.7	59	79	11	143	41	15	13	29	1.85
3461901--3462095	4	48.5	4	89	3	194	25	33	0	40	1.60
3463857--3463891	2	17.5	2	100	0	70	48	0	0	51	1.00
3464195--3464239	24	1.9	24	86	4	65	17	8	0	73	1.08
3468203--3468279	22	3.5	22	90	0	118	38	23	12	24	1.90
3469114--3469153	21	2.0	20	90	5	62	20	25	17	37	1.94
3469880--3470197	106	3.0	106	91	0	519	35	23	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3472088--3472145	12	4.8	12	76	16	57	39	1	3	55	1.27
3472142--3472186	23	2.0	22	86	8	63	15	11	4	68	1.34
3472447--3472493	25	1.9	24	86	4	67	17	8	0	74	1.05
3473482--3473539	26	2.2	26	96	0	107	44	22	10	22	1.82
3474581--3474637	24	2.4	24	79	5	62	29	3	8	57	1.45
3482496--3482687	75	2.5	76	85	3	253	20	25	30	23	1.99
3485276--3485334	20	2.9	20	80	9	66	11	25	38	23	1.89
3489144--3489183	21	1.9	21	85	10	55	35	10	2	52	1.48
3489327--3489365	15	2.6	15	95	0	69	20	25	12	41	1.88
3491121--3491313	74	2.6	74	85	3	237	20	24	30	23	1.99
3492590--3492632	20	2.2	20	86	0	59	34	20	13	30	1.92
3493194--3493218	13	1.9	13	100	0	50	0	12	0	88	0.53
3497596--3497641	22	2.3	19	85	14	58	26	4	39	30	1.75
3500382--3500418	16	2.5	15	91	8	58	32	5	24	37	1.78
3500494--3500528	12	2.9	12	100	0	70	57	17	8	17	1.64
3500790--3500817	14	2.0	14	100	0	56	85	0	14	0	0.59
3514865--3514931	21	3.2	21	72	12	66	46	4	0	49	1.22
3517265--3517506	46	5.3	46	89	0	367	43	11	21	23	1.85
3524152--3524232	30	2.8	29	77	15	87	37	17	6	39	1.75
3533973--3534212	46	5.2	46	87	1	338	44	10	20	24	1.83
3535891--3536049	39	4.1	39	80	0	156	20	26	22	31	1.98
3542552--3542576	11	2.3	11	100	0	50	16	36	8	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3547138--3547413	36	7.4	37	75	14	205	45	3	7	42	1.52
3547175--3547361	40	4.9	38	76	17	158	46	3	7	42	1.48
3547155--3547375	38	5.9	37	75	12	148	46	4	8	41	1.52
3547396--3547432	2	19.0	2	94	5	67	51	0	0	48	1.00
3547449--3547553	36	2.8	36	87	7	147	40	0	3	54	1.25
3547285--3547515	125	1.8	125	80	6	279	46	3	6	43	1.46
3547449--3547553	39	2.8	37	90	5	158	40	0	3	54	1.25
3547417--3547581	36	4.6	35	77	13	126	43	1	4	50	1.31
3547483--3547567	37	2.3	39	82	8	97	45	1	4	48	1.31
3547576--3547614	20	2.0	20	85	10	53	12	7	0	79	0.93
3547584--3547616	17	1.9	17	88	11	50	9	9	0	81	0.87
3552803--3553065	95	2.7	95	84	3	312	33	16	16	33	1.92
3554398--3554549	36	4.2	36	89	5	236	30	17	11	40	1.86
3554442--3554840	174	2.3	174	86	0	564	25	18	12	42	1.86
3554567--3554723	36	4.3	36	77	4	127	26	19	13	40	1.88
3554427--3554687	138	1.9	137	84	2	353	27	17	11	42	1.85
3554736--3554837	37	2.8	36	79	2	123	22	21	12	43	1.86
3556654--3556723	23	3.1	22	73	20	72	18	7	1	72	1.14
3557127--3557174	17	2.8	18	84	9	57	12	10	0	77	1.00
3557651--3557701	22	2.4	22	86	3	68	74	0	5	19	1.02
3558319--3559253	84	11.3	83	78	6	822	25	19	23	31	1.98
3558310--3559023	333	2.2	331	86	2	977	25	18	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3558319--3559271	333	2.9	330	82	4	938	25	19	23	31	1.98
3558258--3559253	248	4.0	248	81	6	1059	25	19	23	32	1.98
3558323--3559253	164	5.6	161	81	7	592	25	19	23	31	1.98
3563117--3563157	18	2.2	18	91	4	64	80	0	7	12	0.90
3565566--3565630	30	2.2	31	83	8	89	43	6	13	36	1.70
3565576--3565633	30	2.0	30	93	3	100	39	6	17	36	1.76
3566929--3567211	117	2.4	116	83	2	343	18	25	22	33	1.96
3566922--3567217	39	7.6	39	77	3	258	17	26	21	34	1.96
3568344--3568378	13	2.7	13	86	0	52	37	0	14	48	1.44
3575318--3575385	29	2.2	31	82	7	77	52	1	17	27	1.53

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