genome.fa.s3409.2.7.7.80.10.50.1000.2.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: VEPZ01003409.1 Hibiscus syriacus cultivar Beakdansim tig00007181_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  462136

Tables:   1   2   3   

This is table  2  of  3  ( 268 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)
254159--254210	20	2.7	20	90	3	88	32	15	17	34	1.91
258900--258948	3	15.7	3	83	8	62	36	4	0	59	1.17
258904--258940	13	2.8	13	100	0	74	37	5	0	56	1.22
258901--258943	13	2.9	16	80	20	65	37	4	0	58	1.19
260195--260312	28	4.2	28	73	16	84	31	10	4	54	1.53
260542--260799	128	2.0	126	93	1	444	37	6	7	48	1.59
272412--272623	54	4.0	54	82	1	216	36	14	20	28	1.92
272987--273087	22	4.6	22	96	0	175	33	14	13	37	1.86
273761--273970	45	4.7	45	90	0	278	26	22	19	31	1.98
273990--274138	45	3.3	45	87	0	208	24	22	17	34	1.96
273867--274093	123	1.8	123	88	0	346	25	21	17	34	1.95
273822--274305	168	2.9	168	91	0	770	24	21	19	34	1.96
274158--274395	45	5.3	45	93	2	406	23	22	21	33	1.97
273761--274517	213	3.6	210	77	10	702	24	22	19	33	1.97
273990--274527	258	2.1	256	90	2	826	24	22	19	33	1.97
274414--274517	45	2.3	45	91	0	163	28	22	18	30	1.97
274293--274590	121	2.5	121	91	2	476	26	21	20	32	1.97
274841--274870	3	9.7	3	92	7	51	33	0	0	66	0.92
275358--275397	19	2.1	19	95	0	71	20	45	22	12	1.84
276092--276136	21	2.1	21	84	8	56	35	0	2	62	1.08
285628--285689	3	19.7	3	80	9	70	33	3	1	61	1.22
287106--287364	128	2.0	127	94	0	455	37	8	8	45	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
307312--307377	3	22.3	3	74	20	50	69	0	4	25	1.07
307296--307370	34	2.1	34	80	16	89	70	0	4	25	1.04
307312--307370	14	4.2	14	75	14	59	71	0	3	25	1.02
307393--307438	18	2.5	19	86	6	60	71	2	6	19	1.18
307393--307438	19	2.5	18	82	6	56	71	2	6	19	1.18
308031--308195	82	2.0	82	94	2	287	56	12	1	29	1.46
308391--308719	163	2.0	164	99	0	651	42	19	10	27	1.83
309031--309072	14	3.1	14	72	6	50	69	2	19	9	1.28
315804--315877	19	3.9	18	81	13	78	70	0	6	22	1.11
315806--315861	23	2.4	23	72	21	62	73	0	5	21	1.03
315900--315946	19	2.5	19	89	3	69	70	0	6	23	1.10
316540--316703	82	2.0	81	90	3	258	57	9	1	31	1.42
321488--321525	20	2.0	19	90	10	60	68	5	2	23	1.23
321685--321735	12	4.2	12	82	9	68	86	0	0	13	0.58
321685--321735	6	8.7	6	83	10	61	86	0	0	13	0.58
322090--322114	2	12.5	2	100	0	50	52	0	0	48	1.00
322597--322753	48	3.3	48	89	0	233	35	14	12	36	1.85
322548--322799	96	2.6	96	77	6	267	34	15	13	36	1.87
322548--322784	48	4.9	48	80	5	212	34	16	13	36	1.87
322902--322938	19	1.9	19	88	0	56	35	29	13	21	1.92
322984--323036	20	2.7	20	87	0	88	26	20	20	32	1.98
323025--323065	21	2.0	21	90	0	64	29	24	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323031--323078	21	2.4	20	86	6	62	29	20	22	27	1.99
323070--323130	21	2.9	21	92	0	104	21	26	21	31	1.98
323286--323337	16	3.1	17	81	13	72	59	1	0	38	1.08
323595--323640	22	2.1	22	87	0	65	19	8	8	63	1.49
323888--323928	20	2.0	21	90	4	66	29	21	26	21	1.99
323918--323967	21	2.4	21	96	0	91	28	28	22	22	1.99
324032--324068	19	1.9	19	88	0	56	21	13	29	35	1.92
324160--324295	48	2.8	50	77	6	152	33	20	11	34	1.89
324269--324423	47	3.3	46	72	8	132	29	18	17	34	1.94
325412--325458	21	2.3	21	78	10	53	8	19	0	72	1.10
327259--327296	18	2.1	18	90	0	58	18	28	18	34	1.95
328691--328756	19	3.5	19	74	0	60	21	15	13	50	1.78
328744--328780	19	1.9	19	88	0	56	21	24	5	48	1.71
331362--331394	6	5.5	6	96	0	57	45	15	18	21	1.85
341717--341749	12	2.8	12	95	0	57	12	15	15	57	1.65
344239--344546	161	1.9	161	98	0	598	43	11	13	31	1.80
345471--345524	12	4.5	12	76	0	54	12	18	9	59	1.60
345469--345524	24	2.3	24	93	0	94	12	17	8	60	1.57
345479--345525	12	3.9	12	77	0	58	10	19	12	57	1.64
351811--351842	2	16.0	2	100	0	64	50	0	0	50	1.00
352469--352535	35	1.9	35	84	6	91	31	17	20	29	1.96
355653--355708	25	2.3	25	87	3	78	58	3	14	23	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355945--355978	4	8.5	4	100	0	68	76	0	0	23	0.79
355738--355978	125	1.9	124	85	8	328	45	13	17	23	1.84
357122--357644	44	11.9	44	69	0	231	30	16	20	32	1.95
357057--357663	132	4.6	132	81	5	634	29	16	20	33	1.95
357995--358113	36	3.3	36	78	5	134	38	15	20	25	1.92
357995--358128	71	1.9	72	82	4	173	38	16	18	26	1.92
358026--358134	36	3.1	35	84	2	130	42	17	17	22	1.89
358326--358424	42	2.4	41	84	5	135	32	23	19	25	1.97
358457--358922	39	11.9	39	87	2	596	36	17	16	29	1.92
358936--359181	77	3.2	75	83	4	316	39	13	15	31	1.86
361368--361421	13	3.9	15	73	22	55	50	12	22	14	1.77
361352--361416	28	2.3	28	82	10	71	49	12	21	16	1.79
363961--364014	23	2.3	24	93	3	92	57	3	14	24	1.54
364129--364161	5	6.8	5	93	6	59	81	0	0	18	0.68
364120--364162	15	2.9	15	83	13	61	79	0	0	20	0.74
364249--364275	4	6.8	4	100	0	54	74	0	0	25	0.83
372269--372312	17	2.5	17	85	10	54	13	18	6	61	1.54
372449--372477	10	2.7	11	94	5	51	10	27	20	41	1.85
372906--372964	3	19.3	3	82	3	73	61	0	5	33	1.18
373919--373984	33	2.0	33	87	0	96	39	21	24	15	1.91
375683--375716	17	2.0	17	88	11	52	47	2	0	50	1.16
377041--377093	21	2.5	21	75	3	52	49	0	3	47	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383178--383309	65	2.0	65	85	2	176	39	6	19	34	1.78
383390--383433	22	2.0	22	86	0	61	36	13	6	43	1.71
384028--384137	20	5.5	21	77	6	104	27	16	18	38	1.92
384342--384919	235	2.5	236	89	2	878	39	13	22	23	1.90
384662--384847	98	1.9	97	82	7	234	41	16	20	21	1.90
384662--384874	97	2.2	96	80	9	229	40	15	21	22	1.90
385264--385301	14	2.8	14	81	18	53	47	0	0	52	1.00
385414--385467	24	2.2	24	100	0	108	29	35	16	18	1.93
386627--386671	21	2.2	20	88	4	63	46	0	2	51	1.13
386627--386689	27	2.6	26	78	16	73	47	0	3	49	1.17
386627--386692	21	3.2	21	75	8	57	46	0	3	50	1.16
389231--389270	18	2.2	19	86	4	55	12	15	7	65	1.47
389871--389913	21	2.0	21	90	0	68	58	0	6	34	1.25
389905--389945	20	2.0	20	86	9	57	63	2	0	34	1.08
391260--391397	54	2.6	54	83	2	170	23	21	15	38	1.92
392324--392520	75	2.6	75	80	6	213	29	21	15	33	1.94
400058--400110	27	2.1	27	83	13	69	71	1	1	24	1.06
400055--400108	23	2.3	23	81	9	65	70	1	1	25	1.07
400357--400430	27	2.7	27	93	0	121	47	8	9	35	1.66
401046--401090	22	2.1	22	88	12	67	66	4	0	28	1.11
410975--411329	175	2.0	177	97	2	678	36	13	20	30	1.91
413991--414052	13	4.8	13	89	0	88	30	17	22	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414951--415009	17	3.2	18	80	11	57	15	15	8	61	1.56
415603--415654	3	17.3	3	76	7	52	57	0	5	36	1.23
415606--415654	21	2.3	21	89	0	71	57	0	6	36	1.24
416850--416915	33	2.0	33	93	0	114	40	22	22	13	1.89
418782--418838	29	2.0	29	85	0	78	43	7	5	43	1.54
418802--419056	36	7.2	36	69	17	99	41	7	4	46	1.52
418895--418933	16	2.6	14	84	11	51	43	0	0	56	0.99
419659--420604	163	5.8	164	88	4	1378	23	20	25	29	1.99
419659--420604	492	1.9	490	88	5	1430	23	20	25	29	1.99
423884--423928	19	2.4	19	92	3	74	64	11	13	11	1.50

Tables:   1   2   3