genome.fa.s8840.2.7.7.80.10.50.1000.3.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: VEPZ01008840.1 Hibiscus syriacus cultivar Beakdansim tig00112044_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1122218

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 681 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)
440908--440994	24	3.7	23	85	3	111	19	13	18	48	1.81
440908--440999	12	7.8	12	73	16	66	18	14	18	48	1.80
440911--441001	47	1.9	48	86	6	132	18	14	17	49	1.80
443075--443116	18	2.3	18	87	0	66	16	47	21	14	1.82
445514--445600	24	3.7	23	84	3	102	20	12	18	48	1.80
445536--445605	12	5.9	12	78	9	63	17	14	18	50	1.79
445538--445609	24	3.0	24	85	2	101	19	12	18	50	1.78
448013--448049	18	2.1	18	94	0	65	40	21	10	27	1.86
449880--449942	31	2.0	31	87	6	92	38	23	19	19	1.93
450661--450798	64	2.2	64	86	5	190	26	18	20	34	1.96
458597--458640	2	22.0	2	100	0	88	50	0	50	0	1.00
464797--464834	12	3.2	12	88	0	58	63	18	0	18	1.32
473463--473534	26	3.0	24	68	27	62	62	4	6	26	1.39
475632--475670	18	2.2	18	90	4	62	64	2	2	30	1.21
475823--475961	50	2.8	51	78	5	149	23	30	29	16	1.96
475992--476054	29	2.1	29	85	2	81	30	14	28	26	1.95
476090--476152	25	2.5	25	72	12	65	47	1	11	39	1.49
476908--476952	14	3.2	15	75	18	51	35	8	0	55	1.31
477039--477071	3	11.7	3	93	6	52	69	0	30	0	0.88
485524--485585	24	2.7	23	80	9	63	22	8	14	54	1.66
490021--490064	3	14.7	3	81	9	54	65	2	2	29	1.16
490021--490070	18	2.8	17	78	6	55	64	2	4	30	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502441--503020	290	2.0	288	96	3	1067	23	21	8	46	1.78
505207--505369	82	2.0	81	92	7	276	28	17	16	37	1.92
505413--505456	16	2.6	17	85	3	63	54	0	0	45	0.99
509113--509171	19	3.3	19	68	18	54	40	1	3	54	1.27
509113--509180	34	2.0	34	82	2	84	47	1	2	48	1.26
509218--509302	32	2.9	29	76	17	79	47	4	0	48	1.23
509239--509302	32	2.2	31	83	13	82	46	6	0	46	1.27
510623--510655	16	2.1	16	94	0	57	54	27	12	6	1.60
510720--510767	16	3.0	16	84	0	69	60	20	8	10	1.55
510716--510757	22	2.0	20	86	9	57	61	19	7	11	1.52
510823--510907	31	2.7	31	96	1	152	32	28	16	22	1.95
511022--511062	11	3.6	11	87	6	64	26	21	24	26	2.00
511285--511331	23	2.0	23	100	0	94	34	4	27	34	1.77
515712--515744	3	11.0	3	100	0	66	33	0	0	66	0.92
516107--516532	145	2.9	145	80	1	469	35	17	25	21	1.95
516787--516872	30	2.9	30	79	6	84	22	6	9	61	1.50
516826--516928	31	3.4	31	86	6	131	19	16	7	56	1.64
516850--516934	31	2.7	31	92	0	134	18	17	8	55	1.66
521493--521546	21	2.6	21	90	0	90	31	27	14	25	1.95
523518--523618	30	3.5	30	72	13	113	49	11	5	32	1.64
523511--523624	55	2.1	55	98	0	219	48	13	8	29	1.72
523541--523633	30	3.3	29	67	21	88	50	10	7	31	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524001--524049	14	3.8	14	71	20	52	12	12	18	57	1.65
523998--524049	24	2.2	24	92	0	86	13	11	17	57	1.64
524255--524328	23	3.2	24	75	11	82	12	9	17	60	1.57
524864--525105	30	8.5	29	69	17	125	59	0	4	35	1.21
524845--524974	57	2.4	52	81	11	136	57	0	5	36	1.27
524874--524993	57	2.2	52	80	14	125	56	0	5	36	1.29
525007--525050	6	7.3	6	84	0	61	77	0	0	22	0.77
524981--525055	24	3.1	24	92	3	116	65	0	0	34	0.93
525043--525114	25	2.7	26	74	22	78	55	0	2	41	1.14
525058--525090	17	2.0	17	88	5	50	60	0	3	36	1.12
524984--525114	53	2.5	54	79	12	130	61	0	1	36	1.05
525061--525134	25	3.0	26	82	11	93	54	0	4	41	1.19
525937--526005	30	2.3	30	82	2	86	21	18	15	43	1.88
526892--526952	32	1.9	32	93	0	104	18	13	16	52	1.75
529663--529807	15	9.7	15	92	0	227	31	25	11	31	1.90
530504--530544	20	2.0	20	95	0	73	31	17	9	41	1.82
534144--534187	3	14.7	3	85	0	52	6	36	25	31	1.82
534134--534172	18	2.2	18	85	0	51	15	35	17	30	1.91
534136--534175	21	1.9	21	94	0	71	15	37	17	30	1.90
534278--534351	33	2.2	33	100	0	148	37	20	27	14	1.92
536074--536295	111	2.0	111	95	0	399	45	10	7	36	1.67
536427--536462	10	3.5	11	88	11	51	41	0	25	33	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537653--537698	23	2.0	23	100	0	92	39	0	17	43	1.49
539307--539343	8	4.9	8	83	12	51	29	10	8	51	1.65
543215--543274	16	3.9	16	89	4	88	18	21	11	48	1.80
547251--547299	24	2.0	24	100	0	98	28	8	20	42	1.80
553700--555130	722	2.0	722	99	0	2844	30	19	18	31	1.95
555532--555599	30	2.3	30	89	0	100	30	23	11	33	1.91
557107--557157	25	2.0	25	100	0	102	19	13	15	50	1.77
558007--558061	18	3.1	18	100	0	110	49	10	10	29	1.72
558183--558223	21	2.0	21	85	9	57	75	0	19	4	0.98
560582--560617	17	2.1	17	94	0	63	33	13	22	30	1.93
562187--562281	2	47.5	2	93	0	163	49	1	1	48	1.15
571849--571878	12	2.4	13	94	5	53	80	0	3	16	0.85
574118--574148	2	15.5	2	100	0	62	48	0	0	51	1.00
597429--597474	21	2.1	21	88	4	65	15	15	0	69	1.19
599060--599173	47	2.5	46	86	2	158	31	21	7	39	1.82
599278--599399	40	3.0	40	98	0	235	32	26	17	23	1.96
602869--602945	22	3.5	22	85	0	109	28	28	22	20	1.98
602869--602953	44	1.9	44	87	0	125	28	28	22	21	1.99
609448--609487	20	2.0	21	90	5	64	40	12	5	42	1.64
609675--609734	22	2.7	22	86	0	93	30	31	23	15	1.95
610264--610340	20	3.8	20	84	6	93	24	23	16	35	1.95
614431--614481	19	2.7	19	77	14	52	62	3	1	31	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615314--615370	15	3.5	15	71	17	51	22	24	33	19	1.97
615313--615397	34	2.5	34	90	1	134	20	27	32	20	1.97
615363--615423	21	3.0	21	88	7	90	14	29	36	19	1.92
618889--618945	15	3.5	15	72	25	53	19	24	36	19	1.94
618888--618973	34	2.5	34	94	3	145	17	26	36	19	1.94
618904--618994	20	4.8	20	73	21	81	16	28	35	19	1.94
620959--621023	29	2.2	29	97	0	121	49	16	10	23	1.77
621627--621668	21	2.0	21	100	0	84	52	4	9	33	1.55
622148--622186	20	2.0	20	90	5	62	58	5	0	35	1.20
622644--622719	6	12.7	6	74	0	71	39	6	10	43	1.65
622644--622719	12	6.3	12	92	0	107	39	6	10	43	1.65
622650--622731	18	4.6	18	78	0	83	41	9	9	39	1.71
622851--622879	2	14.5	2	100	0	58	51	0	0	48	1.00
622982--623067	29	3.0	29	93	3	138	13	33	30	22	1.93
623125--623210	33	2.6	34	83	5	113	11	33	27	26	1.91
623188--623241	20	2.7	20	85	0	81	12	27	33	25	1.93
623298--623355	29	2.0	29	82	0	71	25	25	34	13	1.93
623456--623504	2	24.5	2	100	0	98	48	0	0	51	1.00
638287--638332	24	2.0	24	83	8	60	60	0	0	39	0.97
638354--638411	25	2.3	25	100	0	116	31	5	6	56	1.47
638548--638627	28	2.8	28	90	1	124	36	12	12	38	1.81
646067--646095	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646850--646883	16	2.1	16	88	0	50	23	11	23	41	1.87
647131--647207	37	2.1	37	100	0	154	25	22	15	36	1.93
651140--651179	3	13.0	3	89	5	62	0	37	0	62	0.95
658633--658717	20	4.1	20	72	13	64	16	25	35	22	1.95
662427--662466	21	1.9	21	85	10	55	35	10	2	52	1.48
666528--666569	19	2.2	20	87	8	61	38	0	0	61	0.96
675362--675432	30	2.2	32	85	11	94	42	0	1	56	1.08
676039--676090	12	4.2	12	76	16	52	40	0	1	57	1.10
676040--676086	25	1.9	24	86	4	67	42	0	2	55	1.12
682791--682818	14	2.0	14	100	0	56	42	0	7	50	1.30

Tables:   1   2   3   4   5   6