genome.fa.s9120.2.7.7.80.10.50.1000.3.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: VEPZ01009120.1 Hibiscus syriacus cultivar Beakdansim tig00112609_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  584398

Tables:   1   2   3   

This is table  3  of  3  ( 353 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)
356995--357032	3	13.0	3	88	5	60	68	0	31	0	0.90
358981--359062	20	4.2	20	87	6	123	17	41	28	13	1.87
361371--361420	20	2.6	19	87	3	64	42	2	4	52	1.31
365459--365507	16	3.4	16	68	26	54	71	8	4	16	1.26
365451--365513	27	2.3	27	100	0	126	71	12	3	12	1.26
367287--367352	29	2.3	27	82	14	80	25	1	4	68	1.18
367297--367369	29	2.4	29	93	4	119	26	0	4	69	1.06
367315--367366	13	3.8	13	71	14	50	26	0	1	71	0.97
371234--371391	79	2.0	79	100	0	316	29	20	15	35	1.93
373035--373589	276	2.0	277	97	1	1062	34	12	20	32	1.90
374658--374710	22	2.4	22	100	0	106	39	0	16	43	1.49
375785--375859	29	2.5	30	78	2	89	18	4	37	40	1.70
376155--376196	21	2.0	22	90	4	68	28	35	19	16	1.93
376189--376223	11	3.2	11	87	0	52	25	25	17	31	1.97
376497--376614	59	2.0	59	100	0	236	42	13	18	25	1.87
377017--377074	22	2.6	22	81	5	55	27	25	18	27	1.98
382322--382374	22	2.4	22	87	0	79	50	11	16	20	1.76
382444--382498	11	5.0	11	75	0	56	27	21	18	32	1.96
383229--383311	22	3.8	22	90	3	123	24	25	20	30	1.99
384871--385031	42	3.9	41	73	17	118	30	19	17	32	1.95
384801--385022	82	2.7	81	79	10	222	31	18	17	31	1.94
384871--385031	41	3.9	41	74	16	152	30	19	17	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389415--389482	30	2.3	30	92	5	111	13	8	38	39	1.75
389424--389468	15	3.0	15	80	0	63	13	11	35	40	1.80
392321--392890	111	5.1	111	93	1	919	45	14	14	25	1.82
392322--392890	220	2.6	222	91	1	926	45	14	14	25	1.82
392998--393072	20	3.8	19	87	5	105	45	24	12	18	1.83
392816--393255	222	2.0	222	90	0	702	42	14	15	27	1.85
398450--398681	115	2.0	115	99	0	455	39	11	12	36	1.80
403699--403753	28	2.0	28	85	7	76	38	14	14	32	1.87
405498--405573	39	1.9	39	84	5	100	17	27	22	32	1.96
405951--406735	2	395.5	2	97	1	1510	0	0	50	49	1.01
411901--412007	39	2.7	39	81	5	119	17	23	23	35	1.95
412371--412398	2	14.0	2	100	0	56	50	0	0	50	1.00
413006--413044	17	2.2	18	86	13	55	30	10	7	51	1.64
413446--413513	30	2.3	30	86	0	91	48	2	5	42	1.42
413817--413921	51	2.1	51	87	0	147	14	32	34	19	1.91
414162--414194	16	1.9	17	88	11	50	36	0	3	60	1.12
414157--414196	17	2.3	19	79	16	50	32	0	2	65	1.06
418005--418066	31	2.2	28	78	16	65	33	27	19	19	1.96
424993--425054	21	3.0	21	73	0	70	33	24	16	25	1.95
425041--425234	20	9.6	20	82	5	230	35	26	18	19	1.95
425616--425686	33	2.2	33	92	0	115	11	22	18	47	1.80
425766--425861	21	4.8	20	82	6	122	45	17	23	12	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425764--425860	41	2.4	40	87	1	140	46	17	24	11	1.81
425880--425977	19	5.7	19	69	22	90	11	22	21	44	1.83
425902--425991	14	5.7	14	69	23	63	10	23	22	44	1.82
425885--425999	33	3.5	33	97	0	221	10	22	20	46	1.80
427692--427974	93	3.1	93	97	0	541	22	12	19	46	1.83
428022--428150	19	7.3	19	75	17	125	45	28	17	8	1.77
428058--428150	33	2.8	32	91	4	150	46	27	18	7	1.76
428022--428150	52	2.5	52	74	14	140	45	28	17	8	1.77
428146--428280	19	7.6	19	74	16	119	11	19	22	46	1.81
428168--428224	14	3.7	14	77	20	60	10	21	22	45	1.82
428151--428243	33	2.8	33	93	0	159	10	20	20	48	1.79
430204--430240	14	2.6	14	100	0	74	29	0	21	48	1.50
430347--430392	20	2.3	20	96	3	85	45	17	21	15	1.85
430401--430641	19	13.7	19	76	17	261	15	21	17	45	1.85
430401--430655	52	4.9	52	89	7	367	14	21	18	45	1.85
430407--430655	33	7.2	33	74	16	227	14	21	18	45	1.84
433086--433132	24	2.0	24	87	8	69	38	21	14	25	1.92
433815--434124	20	15.5	20	86	1	343	20	17	24	37	1.94
434111--434189	21	3.8	21	74	5	79	25	16	22	35	1.95
434091--434189	42	2.4	43	78	11	109	23	17	22	37	1.94
437435--437468	17	1.9	18	88	5	52	58	2	5	32	1.37
439344--439383	12	3.2	13	83	16	50	47	0	5	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439468--439519	24	2.2	24	82	6	61	73	3	1	21	1.10
439492--439530	17	2.3	17	86	0	51	71	2	2	23	1.10
442494--442518	13	1.9	13	100	0	50	8	28	8	56	1.57
446792--447083	36	8.2	36	73	10	206	48	6	5	39	1.53
454618--454655	12	2.8	13	88	11	51	36	7	0	55	1.29
454792--454818	2	13.5	2	100	0	54	51	0	0	48	1.00
454925--454985	23	2.7	23	94	0	104	24	27	27	19	1.99
463639--463783	74	2.0	74	100	0	290	24	24	22	28	2.00
469698--469750	20	2.7	20	93	0	88	15	11	37	35	1.83
472272--472339	2	34.0	2	100	0	136	50	0	0	50	1.00
472835--473607	46	16.8	46	89	2	1158	22	21	9	47	1.79
472866--473597	20	31.7	24	65	23	299	22	21	9	46	1.79
477883--477922	21	1.9	21	89	0	62	10	25	40	25	1.86
477905--477954	21	2.3	22	89	6	75	20	20	40	20	1.92
477920--477962	20	2.1	21	82	4	52	23	23	30	23	1.99
485099--485138	20	2.0	20	100	0	80	35	15	10	40	1.80
487723--488417	46	15.3	46	81	9	682	23	20	9	46	1.80
487919--488405	20	21.7	20	71	18	209	21	21	10	45	1.81
487919--488130	66	3.2	66	93	0	361	21	24	10	43	1.83
487873--488418	112	4.8	110	73	17	431	21	21	10	46	1.80
488097--488313	66	3.2	65	83	9	265	22	22	10	44	1.82
488765--488808	13	3.3	13	90	6	70	47	11	0	40	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488734--488808	27	2.8	27	80	11	91	46	16	1	36	1.55
488734--488803	14	5.1	14	74	19	76	47	17	1	34	1.56
492094--492151	20	2.7	21	76	10	55	25	20	25	27	1.99
493640--493721	23	3.6	23	89	0	128	17	24	26	31	1.97
497795--497831	19	1.9	19	94	0	65	29	27	5	37	1.79
497830--497872	22	2.0	22	90	0	68	32	30	4	32	1.78
500842--500875	17	2.1	17	88	5	52	35	23	26	14	1.94
500753--501046	106	2.8	106	85	1	419	39	19	18	23	1.92
503436--503466	14	2.1	15	94	5	55	35	0	0	64	0.94
514722--514764	23	2.0	21	82	17	52	25	0	4	69	1.07
529045--529087	20	2.2	20	91	0	68	34	20	11	32	1.89
529697--529731	7	4.9	7	86	6	52	0	11	0	88	0.51
529697--529733	15	2.5	15	91	4	58	0	10	0	89	0.49
540597--540643	21	2.2	21	100	0	94	25	4	36	34	1.76
542000--542042	20	2.2	20	91	0	68	34	20	11	32	1.89
564767--564823	21	2.8	20	89	5	87	22	24	29	22	1.99
567762--567821	10	5.9	10	72	18	52	20	21	25	33	1.97
567749--567813	20	3.2	20	78	8	69	18	18	26	36	1.94
567761--567813	11	5.1	11	80	11	67	18	18	24	37	1.94
567819--567848	5	6.2	5	92	7	53	20	60	20	0	1.37
567818--567849	9	3.4	9	91	8	55	21	56	21	0	1.43
567819--567848	14	2.1	15	93	6	53	20	60	20	0	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575090--575125	12	3.2	12	84	15	58	19	41	25	13	1.88
575083--575125	22	2.0	22	95	0	77	18	46	23	11	1.82
578396--578420	8	3.1	8	100	0	50	88	0	0	12	0.53

Tables:   1   2   3

The End!