genome.fa.s1838.2.7.7.80.10.50.1000.3.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2134 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)
454453--454508	18	3.0	18	92	5	85	21	26	30	21	1.98
455454--455738	36	8.4	35	68	20	151	27	17	14	41	1.88
455406--455702	66	4.5	66	86	2	416	27	17	14	40	1.88
455577--455790	102	2.1	103	88	0	313	28	16	14	41	1.87
455658--455719	21	3.2	21	63	25	55	27	16	14	41	1.87
455689--455852	67	2.5	65	80	7	170	30	19	12	37	1.88
455521--455942	169	2.5	167	80	5	413	30	17	13	38	1.88
455764--455951	102	1.8	104	85	4	265	33	20	11	34	1.89
457773--457816	21	2.1	21	95	0	79	38	13	22	25	1.91
459513--459555	21	2.0	21	86	13	61	18	13	2	65	1.38
460244--460292	22	2.2	22	85	0	62	44	16	18	20	1.86
461054--461147	31	3.0	31	93	3	154	38	23	19	19	1.93
465438--465482	22	2.0	22	86	0	63	46	15	17	20	1.84
471086--471195	31	3.5	31	96	0	193	40	20	20	18	1.91
473733--473761	14	2.1	14	93	6	51	79	0	0	20	0.74
473759--473794	13	2.8	13	100	0	72	72	0	27	0	0.85
473760--473798	11	3.5	11	86	13	53	74	0	25	0	0.82
477970--478002	2	16.5	2	100	0	66	51	0	0	48	1.00
477992--478047	24	2.1	28	81	12	66	51	5	1	41	1.35
480048--480127	31	2.6	31	85	0	106	26	22	20	31	1.98
484822--484907	30	2.9	30	82	0	109	38	12	17	31	1.87
485601--485701	30	3.4	29	91	5	159	31	5	3	58	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485724--485813	48	1.9	47	82	8	112	58	3	6	31	1.40
506803--506852	21	2.4	21	90	6	75	38	2	8	52	1.43
506806--506865	21	2.9	20	83	11	59	40	5	6	48	1.51
515978--516025	24	2.0	24	95	0	87	39	0	29	31	1.57
518213--518263	19	2.7	18	74	17	50	35	7	5	50	1.55
528807--528855	20	2.5	20	96	0	89	28	6	22	42	1.77
540251--540280	13	2.3	13	94	0	51	66	0	16	16	1.25
551896--551978	35	2.4	35	87	4	114	30	16	24	28	1.97
552745--552803	21	2.8	21	76	0	64	27	18	16	37	1.93
552738--552833	42	2.3	42	83	0	120	26	14	17	41	1.88
553966--554164	95	2.1	96	85	0	265	41	18	12	27	1.86
558478--558527	24	2.1	24	85	7	66	60	14	2	24	1.45
558701--558749	25	2.0	25	84	4	64	12	40	18	28	1.86
562160--562184	6	4.2	6	100	0	50	84	0	0	16	0.63
568377--568426	24	2.1	24	88	7	75	60	12	2	26	1.43
569809--569966	77	2.1	76	87	1	226	34	8	19	36	1.83
570062--570230	77	2.2	76	89	3	257	31	10	20	36	1.87
570524--570685	73	2.2	73	80	4	177	48	9	11	30	1.72
571511--571662	77	2.0	77	90	0	241	36	18	7	36	1.80
571570--571960	186	2.1	187	87	3	556	31	17	10	39	1.85
572055--572098	22	2.0	22	82	8	54	22	13	11	52	1.72
573909--573968	21	2.8	22	82	12	79	21	25	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573913--573968	22	2.6	21	86	8	69	21	25	26	26	1.99
576401--576435	18	1.9	18	88	0	52	42	14	17	25	1.86
581633--581696	22	2.9	22	79	6	67	48	6	23	21	1.73
581643--581700	22	2.6	22	82	17	68	50	5	24	20	1.69
587188--587248	30	2.0	30	96	0	113	52	3	26	18	1.60
593425--593484	21	2.9	20	90	2	57	45	18	21	15	1.86
593434--593484	21	2.4	21	100	0	102	45	19	21	13	1.85
593478--593591	20	5.7	20	83	6	113	31	25	18	24	1.97
593475--593591	61	1.9	61	85	0	162	33	24	17	23	1.97
594147--594188	19	2.2	19	86	0	57	50	26	19	4	1.67
594184--594254	19	3.7	19	92	3	115	11	18	22	47	1.80
594226--594324	33	3.0	33	90	1	144	11	21	26	41	1.86
594303--594349	20	2.3	20	79	13	60	12	25	14	46	1.80
596343--596435	42	2.2	42	82	0	114	21	38	16	23	1.92
597779--597814	14	2.6	14	95	0	63	30	0	25	44	1.54
597987--598117	66	2.0	64	92	2	217	16	20	19	42	1.89
597989--598118	33	4.1	31	85	7	179	15	20	20	43	1.87
600904--600984	42	2.0	42	87	2	119	22	13	41	22	1.88
601030--601399	185	2.0	185	98	1	724	38	20	18	22	1.93
601537--601603	19	3.5	19	81	4	80	35	23	23	16	1.95
601592--601649	14	3.9	14	79	16	71	48	25	17	8	1.75
601576--601654	32	2.4	33	95	2	142	46	24	18	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601661--601781	19	6.6	19	75	13	83	14	21	21	42	1.89
601697--601781	20	4.4	19	83	5	91	14	22	23	40	1.90
602261--602305	18	2.5	18	85	0	63	15	15	42	26	1.87
603615--603652	20	1.9	20	100	0	76	55	18	15	10	1.68
604157--604211	19	2.8	20	91	5	94	25	20	30	23	1.98
605409--605444	13	2.8	12	88	12	54	52	5	0	41	1.24
605407--605453	23	2.0	23	87	0	67	48	4	0	46	1.21
605479--605562	27	3.2	26	69	14	66	51	1	0	47	1.08
605528--605575	24	2.1	24	88	7	73	47	0	0	52	1.00
607779--607862	3	28.3	3	85	2	89	30	0	5	63	1.19
607890--607922	17	1.9	17	93	0	57	51	30	12	6	1.63
609883--609954	20	3.6	20	98	0	135	33	22	13	30	1.93
610636--610677	2	21.0	2	100	0	84	50	0	0	50	1.00
611233--611276	20	2.2	20	87	0	61	29	18	27	25	1.98
612268--612292	2	12.5	2	100	0	50	48	0	0	52	1.00
612337--612382	2	23.0	2	100	0	92	50	0	0	50	1.00
612399--612472	16	4.7	15	75	14	60	35	2	1	60	1.19
612475--612506	15	2.1	15	94	0	55	12	9	0	78	0.97
612476--612529	21	2.6	20	80	13	56	14	5	5	74	1.19
612519--612583	32	2.1	29	75	18	51	23	3	4	69	1.21
612591--612617	5	5.4	5	100	0	54	18	0	0	81	0.69
624050--624249	110	1.8	110	85	2	285	36	24	18	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625706--625733	10	2.8	10	100	0	56	17	0	0	82	0.68
625793--625866	16	4.7	15	75	14	60	35	2	1	60	1.19
625869--625900	15	2.1	15	94	0	55	12	9	0	78	0.97
625870--625923	21	2.6	20	80	13	56	14	5	5	74	1.19
625914--626008	27	3.6	27	68	15	72	17	7	4	70	1.27
646465--646489	3	8.3	3	100	0	50	68	0	0	32	0.90
649080--649124	23	2.0	22	83	12	56	51	0	11	37	1.38
649508--649593	22	3.9	22	92	0	145	24	18	22	34	1.96
656464--656503	21	1.9	21	85	10	55	62	7	10	20	1.50
675807--675847	18	2.4	18	84	8	50	46	14	0	39	1.45
682946--683022	31	2.5	31	78	2	82	14	25	31	28	1.95
686781--686833	21	2.5	21	84	0	61	35	30	18	15	1.92
693538--693589	21	2.5	21	87	0	77	34	26	21	17	1.95
704100--704200	36	2.8	36	90	3	150	47	2	8	40	1.50
704167--704223	24	2.3	24	85	11	80	43	0	10	45	1.38
704100--704261	36	4.9	34	75	21	119	47	2	8	41	1.47
704100--704213	36	3.2	35	87	3	122	48	2	7	41	1.46
704192--704378	32	5.4	34	75	18	131	44	2	5	46	1.41
704191--704355	38	4.8	34	74	17	137	42	3	6	47	1.45
704240--704381	67	2.2	65	79	14	150	44	2	4	47	1.39
707510--707568	2	29.5	2	100	0	118	49	0	0	50	1.00
708755--708795	14	3.0	13	86	10	55	41	0	9	48	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
708756--708797	16	2.4	18	92	7	70	40	0	7	52	1.29
709005--709051	3	15.7	3	95	0	85	63	0	2	34	1.06
723038--723119	3	27.7	3	78	7	78	58	2	2	36	1.24
723845--724023	57	3.1	57	95	0	313	34	21	16	27	1.95
724001--724049	20	2.5	20	79	0	62	30	22	14	32	1.93
723896--724156	134	1.9	134	93	0	450	36	20	14	29	1.92
723953--724100	77	1.9	77	92	0	251	35	19	13	31	1.91
723845--724194	191	1.8	191	93	0	601	37	21	14	27	1.92
724025--724197	57	3.0	57	93	0	283	40	21	12	26	1.88
724202--724251	22	2.3	22	96	0	91	32	24	12	32	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18