genome.fa.s3053.2.7.7.80.10.50.1000.2.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: VEPZ01003053.1 Hibiscus syriacus cultivar Beakdansim tig00006365_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  776842

Tables:   1   2   3   

This is table  2  of  3  ( 335 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)
272757--273539	113	7.0	113	92	1	1155	36	15	18	29	1.92
278653--278711	29	2.0	29	100	0	118	49	13	13	23	1.78
283337--283395	29	2.0	29	100	0	118	49	13	13	23	1.78
293052--293094	18	2.4	18	84	7	52	20	6	4	67	1.33
298338--298380	18	2.4	18	88	7	61	20	9	4	65	1.40
298338--298391	18	2.9	18	83	8	56	22	9	3	64	1.38
300209--300256	20	2.4	20	96	0	87	0	45	4	50	1.21
301675--301877	31	6.5	31	93	0	334	20	18	21	39	1.92
302871--303030	54	3.0	54	83	0	221	33	20	18	27	1.96
317893--317938	24	1.9	24	81	0	56	34	41	0	23	1.55
321811--321860	2	24.0	2	84	8	64	46	0	6	48	1.27
321813--321854	15	2.8	15	88	0	66	45	0	7	47	1.30
321815--321860	13	3.7	12	82	8	56	45	0	6	47	1.28
321807--321883	34	2.3	36	76	17	76	44	0	6	49	1.28
324139--324177	2	19.5	2	100	0	78	48	0	0	51	1.00
326715--326759	11	4.1	11	82	5	56	71	4	11	13	1.29
326715--326756	22	1.9	22	90	9	68	69	4	11	14	1.34
333494--333541	19	2.5	18	83	16	53	54	4	0	41	1.20
334625--334804	56	3.2	56	84	4	229	30	25	16	27	1.97
339025--339079	29	2.0	26	86	10	74	12	12	3	70	1.28
339613--339655	18	2.5	17	85	14	54	27	9	0	62	1.25
342506--342539	6	5.5	6	86	6	50	17	5	0	76	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345976--346015	18	2.3	18	91	4	64	25	10	5	60	1.49
350109--350151	17	2.5	17	88	0	68	39	4	16	39	1.69
359014--359139	47	2.8	45	86	5	182	30	22	7	38	1.83
359247--359374	59	2.2	59	86	0	175	28	25	17	28	1.97
363270--363364	31	3.1	29	82	11	100	6	18	1	73	1.10
363338--363381	15	2.8	16	86	6	54	2	18	2	77	0.98
363338--363382	17	2.6	17	89	3	63	2	17	2	77	0.97
366191--366316	47	2.8	45	86	5	182	30	22	7	38	1.83
370450--370536	17	4.9	17	72	17	70	6	18	1	73	1.12
370450--370541	33	2.8	31	81	15	98	6	18	1	73	1.10
370461--370546	32	2.6	31	81	17	95	5	19	1	73	1.10
370520--370563	15	2.8	16	86	6	54	2	18	2	77	0.98
370452--370563	32	3.5	32	74	19	90	5	19	1	73	1.12
373360--373485	47	2.8	45	86	5	182	30	22	7	38	1.83
373594--373722	59	2.2	59	87	0	177	28	24	17	28	1.98
376026--376139	46	2.5	46	80	0	129	35	17	12	34	1.87
377938--377993	27	2.1	27	96	0	103	42	17	17	21	1.89
379159--379215	26	2.2	26	100	0	114	38	19	12	29	1.88
386437--386495	27	2.2	27	93	0	100	28	15	16	38	1.89
387289--387316	2	14.0	2	100	0	56	50	0	0	50	1.00
391911--391964	24	2.2	24	80	6	65	31	7	25	35	1.84
396726--396764	20	2.0	20	89	0	60	33	10	17	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403419--403472	23	2.3	23	100	0	108	24	18	9	48	1.77
408240--408285	23	2.2	21	85	14	60	60	13	13	13	1.59
408245--408294	23	2.1	25	89	10	79	62	12	14	12	1.56
408282--408317	16	2.2	16	90	5	54	83	0	16	0	0.65
420152--420185	17	2.0	17	88	0	50	23	5	0	70	1.09
422395--422440	17	2.7	16	83	12	56	41	8	0	50	1.33
426348--426390	21	2.0	21	82	8	52	25	20	18	34	1.96
426497--426554	20	2.7	21	84	10	64	34	22	20	22	1.97
430489--430531	21	2.0	21	82	8	52	25	20	18	34	1.96
430638--430695	20	2.7	21	86	10	73	32	22	22	22	1.98
431402--431500	28	3.5	28	95	0	171	13	18	27	41	1.87
438708--438757	20	2.5	20	86	0	73	42	0	14	44	1.44
440780--440821	17	2.5	17	84	0	57	38	40	4	16	1.70
443087--443122	16	2.4	14	90	9	54	25	0	2	72	0.98
443167--443248	38	2.2	38	88	4	121	30	6	8	54	1.55
443747--443797	2	25.5	2	100	0	102	50	0	0	49	1.00
443929--443955	13	2.1	13	100	0	54	14	33	7	44	1.73
457011--457049	19	2.0	18	85	14	51	64	2	0	33	1.08
461179--461843	137	4.8	138	84	2	813	23	18	23	34	1.96
462110--462188	24	3.3	24	68	7	61	40	5	12	41	1.65
462205--462244	19	2.0	20	85	4	55	57	15	0	27	1.38
462684--462716	17	1.9	17	88	11	50	54	9	0	36	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463844--464031	68	2.8	68	89	1	270	30	23	14	30	1.95
464253--464444	59	3.3	59	89	2	289	36	18	10	33	1.85
464628--464686	31	1.9	31	89	0	91	42	6	10	40	1.65
464713--464761	22	2.2	22	85	3	62	55	12	0	32	1.37
464701--464997	54	5.5	54	79	10	313	52	14	0	33	1.44
464733--465395	32	24.4	31	66	30	314	52	13	0	34	1.45
464869--464911	22	2.0	22	100	0	86	51	13	0	34	1.42
464871--464919	22	2.2	22	88	3	71	55	14	0	30	1.40
464928--465027	26	3.6	26	76	19	112	53	20	1	26	1.52
464813--465027	58	3.8	58	90	4	298	52	16	0	31	1.48
464984--465057	22	3.2	22	75	7	67	56	16	1	25	1.48
464818--465184	192	1.9	189	89	3	567	52	14	0	32	1.47
465012--465395	54	7.1	54	92	0	644	52	11	0	35	1.43
465063--465111	22	2.2	22	85	3	62	55	12	0	32	1.37
465012--465395	161	2.4	162	93	1	655	52	11	0	35	1.43
465170--465218	22	2.2	22	85	3	62	55	12	0	32	1.37
465222--465264	22	2.0	22	100	0	86	51	13	0	34	1.42
465224--465272	22	2.2	22	85	3	62	57	14	0	28	1.38
465298--465345	14	3.1	15	72	21	53	54	6	0	39	1.26
465330--465372	22	2.0	22	100	0	86	51	13	0	34	1.42
465332--465380	22	2.2	22	88	3	71	55	14	0	30	1.40
465375--465483	15	7.0	15	73	17	89	50	4	0	44	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465295--465462	69	2.5	67	76	12	180	50	7	0	42	1.29
465134--465462	54	6.3	47	82	12	221	51	9	0	38	1.39
465440--465492	26	1.9	28	88	11	83	54	7	0	37	1.29
465696--465851	59	2.6	59	92	0	249	34	18	11	35	1.87
467064--467096	15	2.2	15	94	0	57	54	0	0	45	0.99
467843--467899	24	2.2	27	78	12	66	52	8	1	36	1.43
468092--468138	22	2.2	21	84	3	58	53	6	0	40	1.27
469800--469894	47	2.0	47	91	0	154	15	16	7	60	1.57
479776--479853	42	1.9	40	89	5	120	51	10	19	19	1.75
479776--479885	41	2.7	42	81	4	118	47	12	20	19	1.82
482212--482507	145	2.0	145	97	0	556	33	16	25	25	1.96
486075--486230	58	2.7	59	83	6	183	38	12	15	33	1.84
488627--488660	12	2.9	12	91	4	52	73	0	26	0	0.83
493540--493576	17	2.1	19	90	10	60	5	32	0	62	1.18
496792--496820	11	2.6	11	100	0	58	68	0	31	0	0.89
501344--501383	20	2.1	19	86	9	55	37	2	2	57	1.26
504229--504292	28	2.3	28	91	0	110	17	10	26	45	1.81
507864--507892	8	3.6	8	100	0	58	51	10	13	24	1.72
514023--514069	3	15.7	3	100	0	94	34	0	0	65	0.93
520626--520668	22	2.0	22	90	0	68	34	34	4	25	1.77
524488--524585	50	2.0	50	81	4	117	31	20	26	21	1.98
533131--533160	11	2.7	11	100	0	60	20	46	10	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533348--533445	50	2.0	50	81	4	117	31	20	26	21	1.98
546813--546856	22	2.0	22	90	0	70	34	38	4	22	1.75
551337--551380	22	2.0	22	90	0	70	34	38	4	22	1.75
555861--555904	22	2.0	22	90	0	70	34	38	4	22	1.75
564584--564627	22	2.0	22	90	0	70	34	38	4	22	1.75
569024--569067	22	2.0	22	86	8	63	36	40	2	20	1.65
575043--575653	90	6.9	90	87	2	799	29	17	20	33	1.95
575499--575653	82	1.9	83	86	1	222	29	17	20	32	1.95
575620--575806	47	4.0	47	89	0	275	25	27	17	29	1.98
575989--576031	3	14.3	3	95	0	77	34	2	0	62	1.08

Tables:   1   2   3