genome.fa.s7962.2.7.7.80.10.50.1000.3.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: VEPZ01007962.1 Hibiscus syriacus cultivar Beakdansim tig00110391_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1774241

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 951 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)
366071--366380	156	2.0	156	90	1	496	36	31	12	19	1.89
366381--366465	24	3.5	24	85	3	100	43	17	12	25	1.85
371356--371392	16	2.2	18	90	9	60	0	8	10	81	0.89
371665--371704	21	2.0	21	90	5	64	12	10	27	50	1.72
374719--374745	2	13.5	2	100	0	54	51	0	48	0	1.00
375782--375825	2	22.0	2	95	0	79	47	0	2	50	1.13
378857--379111	50	5.1	49	76	13	275	42	6	10	40	1.66
378809--379111	155	2.0	154	93	2	518	42	6	10	39	1.66
384988--385014	2	13.5	2	100	0	54	48	0	51	0	1.00
386189--386217	14	2.1	14	93	6	51	27	6	0	65	1.18
388827--388900	3	23.7	3	81	13	87	63	0	0	36	0.95
388827--388899	19	3.8	19	81	12	96	64	0	0	35	0.94
388824--388907	19	4.4	19	79	11	82	59	0	0	40	0.97
389249--389319	28	2.5	28	100	0	142	28	21	9	40	1.85
389294--389446	80	1.9	80	85	1	209	28	19	15	36	1.92
392069--392161	32	3.0	31	88	3	141	24	20	22	32	1.98
400146--400256	54	2.0	55	98	1	215	27	34	10	27	1.90
405697--405751	3	18.0	3	85	10	76	61	1	0	36	1.06
405745--405793	3	15.3	3	91	8	71	36	0	0	63	0.95
406063--406154	39	2.4	37	80	12	89	47	5	10	35	1.62
406175--406353	34	5.2	34	82	10	188	44	4	8	42	1.54
406336--406372	11	3.4	11	92	0	56	48	5	10	35	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406327--406399	37	2.0	37	91	5	121	49	5	10	34	1.61
418229--418334	45	2.3	45	79	10	117	26	7	0	66	1.18
418265--418380	54	2.1	55	83	13	143	25	6	0	66	1.22
429113--429172	22	2.7	22	94	0	102	21	33	28	16	1.95
429107--429183	22	3.5	22	85	1	91	22	35	24	18	1.96
432932--432971	21	1.9	21	89	0	62	10	25	40	25	1.86
432954--433014	20	2.9	21	85	7	70	16	26	32	24	1.96
436973--437217	36	6.8	37	77	10	215	46	4	7	40	1.54
437007--437197	107	1.8	105	83	2	256	46	5	7	40	1.54
437221--437326	38	2.9	36	81	6	131	47	3	6	42	1.47
440283--440314	7	4.6	7	100	0	64	40	0	12	46	1.42
441048--441172	48	2.8	45	85	8	164	40	8	20	32	1.81
447027--447051	7	3.6	7	100	0	50	40	0	12	48	1.40
447788--447911	47	2.8	45	84	7	153	40	8	19	32	1.81
454856--454952	48	2.0	50	95	4	180	34	16	15	34	1.90
457064--457126	31	2.0	32	96	3	119	34	31	9	23	1.87
458254--458364	58	1.9	58	80	7	127	36	18	3	40	1.69
460989--461469	41	11.7	40	72	15	295	31	19	18	30	1.96
460989--461339	165	2.1	165	78	6	374	29	19	19	30	1.97
460989--461467	206	2.3	206	89	1	730	31	19	18	30	1.96
463369--463429	21	2.9	21	97	0	113	19	6	21	52	1.68
463564--463943	43	8.9	43	91	1	584	24	26	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463564--463943	85	4.4	86	94	0	620	24	26	18	31	1.97
470124--470174	21	2.4	21	93	0	84	45	19	9	25	1.81
475254--475309	19	2.7	21	75	13	62	19	19	35	25	1.95
477999--478081	21	3.8	21	78	12	96	27	15	24	32	1.95
477954--478081	44	2.9	44	82	6	143	32	15	22	28	1.95
478264--478322	28	2.1	28	100	0	118	37	10	10	42	1.73
484583--484633	26	2.0	26	85	7	70	56	7	5	29	1.51
487621--487684	13	4.8	13	72	18	51	57	9	1	31	1.40
493904--493935	2	16.0	2	100	0	64	50	50	0	0	1.00
505534--505689	60	2.6	59	83	3	188	39	4	23	32	1.75
505534--505712	59	3.0	60	81	4	184	39	4	24	32	1.75
505592--505690	29	3.4	29	66	13	76	41	3	22	33	1.69
507978--508017	4	10.0	4	94	0	53	42	25	7	25	1.80
513294--513368	32	2.3	32	93	0	123	42	5	17	34	1.72
513189--513602	139	3.0	138	85	2	533	38	6	18	37	1.75
518869--518914	20	2.3	19	85	14	58	26	15	8	50	1.73
521586--521639	25	2.2	24	83	9	65	22	9	5	62	1.45
521601--521646	12	3.8	12	80	13	58	19	4	4	71	1.20
521597--521648	25	2.2	25	93	6	90	21	3	3	71	1.18
524358--524469	19	5.5	21	83	11	135	33	15	22	28	1.94
524358--524469	41	2.7	41	92	1	179	33	15	22	28	1.94
524792--524958	55	3.0	55	92	3	266	32	13	22	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524801--524968	54	3.1	55	92	1	266	34	12	20	32	1.90
525172--525713	68	8.0	68	88	0	771	31	14	23	30	1.94
525734--525878	45	3.2	46	84	4	188	46	8	21	23	1.79
527640--527686	18	2.6	19	83	10	62	65	2	2	29	1.15
534529--534760	118	2.0	119	99	0	457	22	22	20	34	1.97
537629--537657	5	5.8	5	100	0	58	17	0	0	82	0.66
541658--541704	25	2.0	25	87	8	71	10	8	8	72	1.29
543354--543381	12	2.3	12	100	0	56	32	14	28	25	1.94
553089--553138	23	2.0	26	85	11	70	52	0	2	46	1.12
554779--554847	3	23.0	3	88	5	95	60	0	0	39	0.97
554779--554847	24	2.9	24	91	4	113	60	0	0	39	0.97
554999--555396	119	3.3	119	92	1	620	25	18	16	39	1.91
555316--556093	113	7.0	113	90	3	1075	28	18	15	37	1.92
555316--556093	223	3.5	225	89	4	1080	28	18	15	37	1.92
555316--556095	336	2.3	331	86	6	1070	28	18	15	36	1.92
556782--557245	115	4.1	115	94	1	785	28	20	15	35	1.93
556782--557245	227	2.0	226	92	3	779	28	20	15	35	1.93
559132--559198	22	3.0	22	97	0	125	26	25	26	20	1.99
559418--559477	30	2.0	31	90	3	95	33	23	6	36	1.81
559492--559563	29	2.5	29	93	0	117	38	12	9	38	1.76
559866--560017	68	2.3	67	88	1	214	18	26	27	26	1.98
559997--560039	21	2.0	21	86	0	59	16	25	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559867--560039	68	2.6	67	84	6	206	18	27	26	27	1.98
568152--568183	15	2.1	15	94	0	55	46	6	18	28	1.73
572004--572053	23	2.0	26	85	11	70	52	0	2	46	1.12
573697--573768	3	24.0	3	91	5	110	62	0	0	37	0.95
576131--576186	2	28.0	2	92	0	85	44	0	3	51	1.18
585343--585389	14	3.5	14	80	11	62	72	0	4	23	1.02
585338--585405	27	2.5	28	79	15	88	69	0	4	26	1.07
585351--585402	26	2.0	27	88	11	81	69	0	3	26	1.06
585983--586015	13	2.6	13	90	4	50	78	0	12	9	0.95
589796--589824	3	9.7	3	100	0	58	65	0	0	34	0.93
591687--591738	21	2.4	22	84	12	72	30	17	25	26	1.97
592579--592684	28	3.8	28	82	1	133	16	17	26	38	1.92
617664--617911	55	4.5	54	81	7	282	25	26	22	25	2.00
617671--617876	27	7.4	27	66	18	91	25	26	22	25	2.00
617667--617878	113	1.9	114	91	1	354	25	25	23	25	2.00
623160--623191	17	1.9	16	93	6	55	6	43	0	50	1.27
637027--637071	19	2.4	19	96	3	83	60	4	0	35	1.17
645821--645878	21	2.7	21	89	2	80	17	22	24	36	1.95
646156--646224	27	2.6	27	80	0	66	23	18	43	14	1.87
647914--647947	9	3.9	9	84	7	52	61	2	0	35	1.11
647899--647954	16	3.4	16	87	4	76	62	1	1	33	1.16
656891--656935	24	1.9	23	86	4	63	33	26	6	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660508--660542	15	2.3	15	90	0	52	48	5	8	37	1.58
662240--662285	2	23.0	2	100	0	92	50	0	0	50	1.00
663121--663175	20	2.8	20	81	10	60	61	5	1	30	1.29
663308--663340	16	2.1	16	100	0	66	51	12	12	24	1.73
663627--663853	22	10.0	22	72	10	127	45	2	8	43	1.47
663616--663796	43	4.0	43	82	5	200	45	2	9	42	1.49
663587--663826	46	5.3	43	78	9	214	45	2	9	42	1.50
663839--663872	2	17.0	2	100	0	68	50	0	0	50	1.00
663800--663917	59	2.0	55	84	14	146	47	1	5	45	1.34
663673--663919	22	11.1	22	71	19	94	46	2	6	44	1.43

Tables:   1   2   3   4   5   6   7   8