genome.fa.s9189.2.7.7.80.10.50.1000.2.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: VEPZ01009189.1 Hibiscus syriacus cultivar Beakdansim tig00112762_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  966119

Tables:   1   2   3   4   

This is table  2  of  4  ( 434 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)
352418--352512	47	2.0	47	100	0	190	51	10	21	16	1.74
352417--352494	26	3.2	26	61	17	67	51	12	17	17	1.76
353758--353808	23	2.2	23	100	0	102	27	7	21	43	1.80
354534--354584	18	2.9	18	91	2	77	27	29	7	35	1.85
363797--363858	8	7.8	8	96	0	70	40	24	9	25	1.85
363884--364173	4	72.5	4	100	0	580	50	24	0	25	1.50
366940--367022	37	2.3	37	87	6	116	33	2	19	44	1.64
371442--371515	38	1.9	39	89	5	116	31	2	18	47	1.63
373521--373552	16	2.0	16	100	0	64	43	18	0	37	1.51
376265--376342	21	3.7	21	91	0	120	23	24	28	24	2.00
376379--376554	65	2.7	63	78	10	162	27	19	23	28	1.98
376399--376606	65	3.2	64	76	8	183	26	18	23	31	1.98
376872--376974	3	34.7	3	79	9	113	36	2	0	60	1.12
376872--376986	9	12.9	9	78	11	78	39	2	0	58	1.12
377451--377475	13	1.9	13	100	0	50	72	8	20	0	1.10
377464--377516	25	2.2	25	86	3	72	75	9	13	1	1.12
378455--378533	22	3.6	22	79	5	97	24	25	25	25	2.00
378458--378552	21	4.4	21	77	9	86	24	22	26	27	2.00
383748--383903	65	2.4	64	81	5	172	28	19	23	28	1.98
385418--385449	16	2.0	16	93	0	55	34	0	21	43	1.53
385400--385456	26	2.2	26	78	12	64	35	3	15	45	1.64
386287--386334	11	4.5	11	80	15	55	0	37	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
386297--386341	21	2.2	20	92	4	72	0	37	0	62	0.96
386311--386355	15	2.9	15	86	3	63	2	37	0	60	1.09
386630--386713	28	3.0	27	77	11	80	17	29	34	17	1.94
387318--387366	22	2.2	23	85	10	66	38	2	0	59	1.09
388262--388295	18	1.9	18	88	5	52	26	32	26	14	1.95
388607--388634	14	2.0	14	100	0	56	42	0	7	50	1.30
389762--389793	7	4.7	7	96	3	57	56	15	12	15	1.68
393243--393330	29	3.0	29	91	0	149	50	13	13	22	1.77
396831--396889	29	2.0	29	100	0	118	49	13	13	23	1.78
398099--398133	15	2.3	15	100	0	70	25	28	14	31	1.95
399102--399468	110	3.3	109	81	6	386	40	14	8	36	1.77
400529--400776	113	2.2	111	82	9	290	36	14	7	42	1.73
401535--401567	5	6.6	5	100	0	66	36	0	21	42	1.53
403063--403110	21	2.3	21	81	0	60	58	0	2	39	1.10
406755--406784	2	15.0	2	100	0	60	50	0	0	50	1.00
410176--410217	20	2.1	20	95	0	75	4	40	0	54	1.21
423940--424024	28	2.9	28	76	10	80	41	10	8	40	1.70
424382--424432	15	3.4	15	97	0	93	37	5	15	41	1.72
424363--424447	15	5.7	15	80	9	77	40	5	16	37	1.73
424457--424490	14	2.4	14	90	0	50	38	14	14	32	1.87
426288--426319	3	10.7	3	100	0	64	0	0	31	68	0.90
426551--426621	19	3.6	19	70	10	54	47	1	2	47	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426558--426646	39	2.2	41	78	11	96	51	1	2	44	1.21
426581--426680	28	3.5	28	72	20	73	56	2	0	42	1.11
426694--426734	19	2.1	20	86	4	57	53	0	2	43	1.13
426699--426751	21	2.7	20	85	5	63	52	0	0	47	1.00
426706--426768	24	2.6	23	82	12	65	49	0	0	50	1.00
426959--427053	42	2.3	42	92	0	154	46	17	17	17	1.85
441819--441865	23	2.0	23	95	0	85	42	19	23	14	1.88
443008--443051	22	2.0	23	86	13	65	25	0	25	50	1.50
446949--447002	22	2.5	22	81	0	72	42	16	1	38	1.59
447325--447353	12	2.3	13	94	5	51	82	6	10	0	0.83
453777--453831	22	2.5	22	84	0	83	38	18	7	36	1.78
454150--454178	12	2.3	13	94	5	51	82	6	10	0	0.83
454288--454321	18	1.9	17	88	5	50	70	2	26	0	1.01
458887--458929	21	2.0	21	90	0	68	51	6	13	27	1.67
466900--466927	7	4.0	7	100	0	56	57	0	28	14	1.38
470540--470566	2	13.5	2	100	0	54	51	0	0	48	1.00
470909--471384	111	4.3	111	90	2	704	31	13	10	44	1.78
471788--472127	110	3.1	110	90	1	493	33	12	10	44	1.75
472050--472210	73	2.2	73	86	3	236	30	9	11	47	1.73
472658--473358	111	6.3	111	90	1	1082	32	11	11	44	1.76
473833--473898	23	2.9	23	86	0	78	37	16	7	37	1.77
473856--474021	87	1.9	87	87	0	242	34	15	10	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473943--473993	23	2.2	23	89	0	75	33	15	9	41	1.80
486177--486309	60	2.2	60	81	2	160	52	3	7	36	1.48
489235--489316	29	2.8	29	94	1	137	32	14	9	42	1.79
494001--494082	29	2.8	29	94	1	137	32	14	9	42	1.79
495599--495678	26	3.1	26	92	0	142	30	15	28	26	1.96
497661--497798	63	2.2	64	81	6	156	35	7	4	52	1.51
498104--498145	20	2.2	19	83	12	50	47	2	2	47	1.28
498242--498285	2	22.0	2	95	0	79	52	0	0	47	1.00
499103--499139	17	2.1	18	95	5	67	18	10	0	70	1.16
499104--499146	18	2.5	17	79	20	54	23	9	0	67	1.19
503553--503824	135	2.0	135	92	0	454	31	14	22	31	1.94
505086--505210	43	2.9	43	87	0	169	25	29	8	36	1.85
506854--507066	55	4.0	54	84	10	258	38	14	20	27	1.91
507429--507486	22	2.6	22	97	0	107	32	17	13	36	1.89
508147--508680	45	11.8	45	91	3	838	25	23	17	32	1.97
508147--508680	137	3.9	136	93	1	876	25	23	17	32	1.97
508147--508680	182	2.9	179	90	4	838	25	23	17	32	1.97
508915--509003	3	29.3	3	78	10	56	37	1	2	59	1.17
508908--508957	14	3.4	14	86	8	64	32	2	2	64	1.16
509917--510054	63	2.2	64	81	6	156	34	8	4	52	1.52
518053--518086	2	17.5	2	93	6	61	50	0	0	50	1.00
518240--518294	13	4.2	13	90	0	83	34	16	21	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522541--522612	11	6.8	10	73	20	58	50	0	5	44	1.25
522541--522850	2	156.5	2	68	22	149	52	4	3	39	1.39
522550--522837	9	32.8	9	71	23	119	53	4	3	38	1.39
522940--522993	20	2.7	21	80	8	76	27	27	14	29	1.95
522980--523040	20	3.0	20	75	20	56	40	22	18	18	1.91
523171--523240	22	3.2	22	87	0	95	27	41	10	21	1.85
525702--525820	42	2.8	42	78	7	116	21	34	21	21	1.97
525702--525800	21	4.7	21	73	9	85	23	33	21	22	1.97
527170--527309	66	2.2	63	83	7	169	30	0	16	52	1.49
527610--527696	39	2.2	39	93	0	147	18	13	19	48	1.81
528006--528042	18	2.1	18	89	0	56	51	10	5	32	1.60
528428--528477	25	2.0	25	96	0	91	44	22	8	26	1.80
528579--528688	20	5.5	20	87	0	148	13	17	26	42	1.86
528980--529014	6	5.8	6	86	0	52	17	2	20	60	1.49
528973--529013	18	2.3	18	95	0	73	17	2	24	56	1.53
531272--531325	24	2.2	24	90	0	81	38	16	20	24	1.92
531452--531485	12	2.8	12	90	0	50	14	0	29	55	1.40
532396--532421	3	8.7	3	100	0	52	0	0	30	69	0.89
538163--538192	14	2.1	14	93	0	51	40	10	20	30	1.85
545405--545433	14	2.1	14	100	0	58	20	41	24	13	1.89
546416--546567	7	21.4	7	68	20	54	51	4	5	38	1.45
546415--546543	37	3.5	37	67	17	99	51	4	5	38	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546423--546477	24	2.3	22	77	17	56	49	5	3	41	1.43
546471--546546	31	2.5	28	78	17	80	52	3	5	38	1.43
546524--546567	15	2.8	16	83	10	56	56	2	4	36	1.32
546586--546616	2	15.5	2	100	0	62	48	0	0	51	1.00
547177--547273	2	48.0	2	81	6	79	43	2	8	46	1.45
547694--547779	43	2.0	43	86	0	118	26	31	0	41	1.56
547822--547846	2	12.5	2	100	0	50	52	0	0	48	1.00
549332--549377	17	2.7	17	86	0	56	73	6	6	13	1.22
553209--553407	43	4.7	43	70	12	113	26	17	6	50	1.69
553606--553649	23	1.9	23	81	9	54	22	13	6	56	1.61

Tables:   1   2   3   4