genome.fa.s8007.2.7.7.80.10.50.1000.3.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: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1953294

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1251 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)
386376--386438	28	2.2	30	88	5	94	57	12	0	30	1.36
387158--387216	30	2.0	30	89	0	91	18	38	16	25	1.92
387660--387742	11	7.8	11	69	22	52	67	3	2	26	1.19
388944--388981	3	13.0	3	83	5	51	63	0	0	36	0.95
388945--388978	17	2.0	17	100	0	68	64	0	0	35	0.94
388952--389000	20	2.6	19	87	9	66	73	0	0	26	0.83
389296--389861	122	4.7	122	85	5	688	26	19	14	39	1.90
389656--389871	112	1.9	112	86	1	308	27	19	14	38	1.91
390232--390304	22	3.3	22	88	0	110	36	12	15	35	1.84
390687--390735	24	2.0	24	92	0	80	18	28	8	44	1.78
390711--391016	54	5.7	54	82	1	362	25	22	13	38	1.90
390711--391009	162	1.8	162	93	0	517	25	22	12	38	1.90
398401--398436	18	1.9	19	94	5	65	72	5	8	13	1.27
399332--399424	46	2.0	47	83	6	118	32	16	10	40	1.82
400116--400153	16	2.3	17	86	4	51	57	0	10	31	1.32
400689--400771	11	7.8	11	69	22	52	67	3	2	26	1.19
401976--402028	3	18.0	3	88	3	81	71	0	0	28	0.86
403353--403398	15	3.3	15	76	14	53	56	0	2	41	1.11
404802--404834	12	2.6	13	85	4	50	36	0	3	60	1.12
404833--404940	3	36.0	3	94	0	189	65	0	1	32	1.03
405266--405720	113	4.0	113	83	6	578	29	19	14	37	1.91
405267--405712	229	2.0	226	90	3	707	28	19	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405627--405671	24	1.9	23	82	13	56	15	24	6	53	1.66
406441--406912	83	5.7	83	91	2	711	36	23	13	26	1.92
406436--406912	165	2.9	165	89	4	719	36	23	12	26	1.91
406441--406914	248	1.9	250	90	4	753	36	23	13	27	1.92
407697--407735	15	2.5	16	91	8	71	53	5	10	30	1.56
408053--408122	1	70.0	1	76	0	59	0	12	0	87	0.55
408053--408119	8	8.8	8	82	8	70	0	13	0	86	0.57
408053--408123	26	2.8	25	81	6	90	0	14	0	85	0.59
408060--408103	17	2.6	17	88	0	70	0	11	0	88	0.51
408055--408125	19	3.7	19	81	14	92	0	14	0	85	0.59
408053--408125	32	2.3	32	88	9	105	0	13	0	86	0.58
415452--415483	15	2.1	15	94	0	55	46	9	18	25	1.79
419454--419494	15	2.9	15	79	13	52	60	0	0	39	0.96
420907--420990	3	28.0	3	92	0	141	65	0	2	32	1.05
422713--422738	9	2.9	9	100	0	52	0	11	0	88	0.52
432203--432265	30	2.1	30	91	2	101	52	0	11	36	1.37
436988--437018	11	2.8	11	95	0	53	38	9	22	29	1.86
437940--438113	75	2.3	75	90	2	260	29	23	18	28	1.98
441641--441725	11	8.1	10	71	23	68	1	15	0	83	0.71
441602--441716	7	16.7	7	87	4	137	2	18	0	79	0.85
446372--446412	19	2.2	19	83	12	50	39	0	4	56	1.21
448048--448113	3	22.0	3	78	6	71	62	0	4	33	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448354--448993	124	5.3	123	91	3	919	25	20	14	39	1.91
448807--449141	113	3.0	112	85	3	474	29	20	12	38	1.89
458099--458139	19	2.2	19	83	12	50	39	0	4	56	1.21
459882--459941	3	20.0	3	79	6	68	63	0	3	33	1.11
463005--463060	3	19.0	3	85	10	80	64	0	0	35	0.94
463005--463060	20	2.8	19	89	8	76	64	0	0	35	0.94
463187--463994	45	17.8	45	94	1	1328	34	19	22	24	1.97
463187--463994	91	8.9	91	95	0	1352	34	19	22	24	1.97
463187--463994	136	5.9	136	93	1	1323	34	19	22	24	1.97
464653--464732	22	3.6	22	76	18	94	40	12	12	35	1.81
465896--466064	75	2.3	75	87	2	232	33	21	15	29	1.94
469566--469663	1	98.0	1	75	0	61	1	14	0	84	0.67
469568--469663	7	13.7	7	77	12	99	1	14	0	84	0.68
469567--469655	45	2.0	45	88	4	135	1	14	0	84	0.69
474500--474543	19	2.3	19	80	7	54	63	0	4	31	1.14
476858--476910	3	17.0	3	83	11	63	64	1	0	33	1.05
476858--476910	17	3.4	15	84	12	63	64	1	0	33	1.05
476985--477014	11	2.7	11	94	0	51	66	13	0	20	1.24
479793--479825	13	2.4	14	90	5	50	27	9	18	45	1.79
480192--480244	3	17.7	3	80	7	63	66	3	30	0	1.10
483581--483616	2	18.0	2	100	0	72	50	0	0	50	1.00
483916--483985	35	2.0	35	85	0	95	32	11	34	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484202--484232	16	1.9	16	93	0	53	25	6	0	67	1.14
484240--484287	8	5.9	8	83	13	62	27	0	2	70	0.98
484420--484488	33	2.2	32	84	7	88	43	4	10	42	1.58
488599--488978	188	2.0	191	97	2	730	31	14	21	32	1.93
490653--490955	149	2.0	150	95	3	549	33	10	16	38	1.84
492676--492724	20	2.5	20	86	0	62	30	2	4	63	1.24
492713--492742	13	2.2	14	94	5	53	20	0	13	66	1.24
492714--492785	23	3.1	23	80	11	76	22	0	9	68	1.19
492746--492822	16	5.1	15	75	9	68	18	1	6	74	1.11
492762--492854	32	3.0	32	84	6	111	22	2	6	68	1.23
492676--492829	79	1.9	79	82	11	190	23	1	7	67	1.26
493039--493095	28	2.0	28	96	0	105	56	15	14	14	1.68
497862--497896	17	2.1	17	100	0	70	28	20	17	34	1.95
498327--498379	20	2.7	20	88	2	72	35	7	18	37	1.80
498393--498447	21	2.6	21	91	0	92	34	23	16	25	1.95
502753--502817	22	3.0	21	68	8	60	29	26	16	27	1.97
502904--502928	13	1.9	13	100	0	50	24	20	24	32	1.98
502795--503006	90	2.3	91	88	4	302	27	20	17	34	1.95
503117--503256	44	3.3	43	84	8	173	31	22	20	25	1.98
502964--503441	236	2.0	236	87	4	680	32	21	14	31	1.93
503352--503448	42	2.3	41	82	3	122	34	23	18	23	1.96
503557--503610	20	2.7	20	88	0	81	25	18	29	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503593--503695	42	2.5	42	85	6	145	32	23	21	23	1.98
503581--504284	215	3.3	213	85	3	919	31	20	16	31	1.94
504275--504513	109	2.2	109	86	5	329	22	17	21	38	1.93
504271--504502	73	3.2	72	81	2	284	23	17	22	37	1.94
504271--504513	36	6.6	36	82	3	288	23	17	21	37	1.94
505760--506001	124	2.0	124	88	0	358	23	27	16	32	1.96
507252--507291	17	2.4	16	87	8	53	12	12	0	75	1.06
510005--510146	55	2.6	55	88	0	212	21	23	11	42	1.86
516696--516733	17	2.2	19	86	13	55	65	0	7	26	1.19
516696--516733	19	2.0	19	85	10	51	65	0	7	26	1.19
516980--517016	16	2.3	16	90	0	56	10	13	37	37	1.80
525464--525489	5	5.2	5	100	0	52	23	57	19	0	1.40
539110--539147	19	2.0	20	84	5	51	42	2	5	50	1.39
541940--541982	23	1.9	23	90	4	70	23	25	23	27	2.00
554721--554759	19	2.1	18	85	4	51	15	30	33	20	1.94
554744--554806	23	2.7	23	92	0	99	20	23	31	23	1.98
561765--561835	28	2.6	28	88	2	99	22	12	26	38	1.90
565891--565962	28	2.6	28	79	0	99	22	12	26	38	1.89
566940--567000	20	3.3	18	73	21	56	34	18	24	22	1.96
574986--575075	41	2.2	41	91	0	153	30	10	23	36	1.87
575827--575860	15	2.3	15	94	0	59	32	32	20	14	1.93
575945--576054	29	3.8	29	89	2	168	18	20	16	45	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582774--582819	18	2.6	18	85	0	56	23	39	21	15	1.92
582803--582836	15	2.3	15	94	0	59	35	32	14	17	1.91
582916--583030	29	4.0	29	91	6	171	18	20	16	45	1.86
583397--583558	64	2.5	63	79	9	177	27	19	18	33	1.96
584358--584421	16	4.1	16	76	23	57	51	0	0	48	1.00
584424--584454	11	2.8	11	100	0	62	54	0	6	38	1.26
584451--584477	11	2.5	11	100	0	54	66	0	0	33	0.92
584438--584486	19	2.6	18	78	9	53	63	0	2	34	1.06
584832--584880	19	2.5	19	83	3	62	63	0	2	34	1.06
584788--584896	47	2.4	46	82	3	130	60	1	4	33	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11