genome.fa.s8955.2.7.7.80.10.50.1000.5.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  5  of  23  ( 2731 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)
808204--808311	22	4.8	22	72	21	73	9	14	0	75	1.03
808218--808303	7	11.9	7	72	11	57	9	15	0	75	1.04
820431--820493	23	2.7	23	95	2	108	58	12	9	19	1.61
820690--820738	15	3.2	15	82	5	62	55	18	2	24	1.53
822052--822417	53	6.9	53	82	3	402	22	25	20	30	1.98
822903--823381	42	11.0	42	73	11	363	30	21	18	29	1.97
823052--823076	13	1.9	13	100	0	50	24	20	24	32	1.98
823026--823334	93	3.4	92	76	9	366	29	21	18	30	1.97
822938--823388	177	2.5	177	89	0	688	29	21	18	29	1.97
823229--823253	13	1.9	13	100	0	50	24	20	24	32	1.98
826737--826783	21	2.2	21	96	0	85	46	8	10	34	1.69
833505--833809	53	5.8	53	85	2	384	24	27	19	27	1.99
834143--834224	42	2.0	42	85	0	110	31	23	17	28	1.96
834060--834611	135	4.3	128	89	5	707	28	22	19	30	1.97
834286--834349	20	3.1	20	75	16	76	28	23	23	25	2.00
834269--834626	42	8.1	42	69	15	193	28	21	20	29	1.98
834278--834341	20	3.0	21	74	17	78	31	23	18	26	1.98
834337--834361	13	1.9	13	100	0	50	24	20	24	32	1.98
834421--834484	20	3.1	20	75	16	76	28	23	23	25	2.00
834413--834476	20	3.0	21	74	17	78	31	23	18	26	1.98
834598--834652	20	2.8	20	77	0	56	27	18	25	29	1.98
836631--836947	156	2.0	156	90	1	501	33	15	14	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
837826--837851	13	2.0	13	100	0	52	38	23	23	15	1.92
843632--843678	15	3.1	16	87	6	62	57	17	2	23	1.50
845653--845680	2	14.0	2	100	0	56	50	0	0	50	1.00
845791--845822	15	2.1	15	94	0	55	71	9	0	18	1.12
846430--846479	20	2.5	20	100	0	100	30	24	16	30	1.96
847693--847737	21	2.1	21	87	0	63	20	24	31	24	1.98
849586--849645	24	2.5	24	100	0	120	40	0	40	20	1.52
862099--862146	15	3.3	15	75	18	57	52	2	39	6	1.39
866647--866700	29	2.0	26	86	13	74	14	40	3	40	1.64
872992--873132	64	2.2	64	84	5	178	30	17	20	31	1.96
878624--878663	21	1.9	21	85	10	55	35	7	2	55	1.42
879469--879523	21	2.6	21	97	0	101	25	21	27	25	2.00
879570--879607	20	1.9	20	94	0	67	28	23	31	15	1.96
879628--879769	21	6.7	21	79	7	144	22	19	35	22	1.95
879628--879769	42	3.4	42	80	2	160	22	19	35	22	1.95
888420--888486	27	2.4	27	80	9	73	67	0	20	11	1.22
898932--899008	23	3.5	22	75	8	84	32	27	15	24	1.95
898970--899024	23	2.4	23	81	0	65	32	27	18	21	1.96
902116--902175	30	2.0	30	90	6	95	11	13	1	73	1.18
905202--905324	21	5.7	21	77	5	111	35	24	15	24	1.94
912158--912205	22	2.2	22	85	14	64	41	20	16	20	1.90
912245--912319	21	3.5	21	75	10	80	40	21	12	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
930491--930690	89	2.4	83	86	9	271	30	25	24	20	1.99
930522--930703	89	2.1	88	92	3	303	28	26	25	19	1.99
931887--931938	26	2.0	27	96	3	97	21	13	19	46	1.84
937559--937620	19	3.2	19	74	2	61	37	3	1	58	1.24
941416--941465	21	2.4	21	80	6	57	28	32	4	36	1.76
947257--947374	54	2.2	53	83	3	148	29	10	22	38	1.87
954896--954958	8	7.9	8	77	13	51	31	0	0	68	0.90
954894--954959	25	2.6	25	76	11	71	30	0	0	69	0.88
954892--954959	31	2.2	30	80	19	79	30	0	0	69	0.89
960420--960490	37	1.9	37	94	0	124	22	21	16	39	1.92
960439--960590	67	2.2	68	86	5	200	28	20	14	36	1.92
960543--960657	34	3.6	33	80	13	132	41	19	8	30	1.81
960592--960651	29	2.1	29	87	6	86	46	16	6	30	1.73
960652--960837	84	2.3	82	85	5	259	31	27	19	22	1.98
961252--961332	33	2.5	33	87	4	101	37	19	13	29	1.90
961867--961912	4	12.2	4	90	9	71	26	0	0	73	0.83
965312--965363	21	2.5	21	93	0	86	36	15	17	30	1.91
965353--965401	20	2.5	20	86	6	64	34	12	28	24	1.91
966015--966281	137	1.9	137	88	0	399	25	13	18	42	1.87
967620--967810	94	2.0	94	98	0	373	30	11	24	33	1.91
971582--971632	7	7.1	7	76	10	50	47	0	21	31	1.51
971582--971630	22	2.3	21	82	10	55	46	0	20	32	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971891--971969	21	3.8	21	81	9	90	21	18	25	34	1.96
975135--975181	20	2.3	20	85	7	60	29	12	34	23	1.92
978095--978268	87	2.0	87	98	0	339	33	23	6	35	1.82
981604--981686	41	2.0	41	90	0	130	31	14	19	34	1.92
988000--988060	23	2.8	23	85	9	92	57	0	1	40	1.08
988000--988060	22	2.8	22	85	14	90	57	0	1	40	1.08
990480--990507	14	2.0	14	100	0	56	42	0	0	57	0.99
994873--994919	24	2.0	24	83	8	60	59	6	2	31	1.34
996061--996115	12	4.3	13	75	11	51	52	0	1	45	1.11
996207--996251	21	2.1	22	83	4	56	44	0	6	48	1.29
996538--996570	16	2.1	16	88	11	50	60	0	0	39	0.97
997873--997929	3	19.0	3	85	7	80	61	0	0	38	0.96
998076--998347	124	2.3	119	83	7	334	23	17	16	42	1.89
998294--998385	36	2.6	36	92	0	148	19	19	10	50	1.77
998305--998363	17	3.2	20	66	26	56	20	20	11	47	1.81
998329--998916	113	5.2	113	86	4	715	28	18	14	38	1.90
998329--998916	229	2.6	227	84	6	734	28	18	14	38	1.90
998818--999020	73	2.8	73	86	2	228	32	15	16	35	1.90
998864--999022	73	2.2	73	91	1	264	35	13	16	34	1.88
999828--1000025	93	2.1	93	92	0	333	34	19	15	29	1.93
1012632--1012664	16	2.1	16	88	11	50	60	0	0	39	0.97
1013668--1013721	3	18.0	3	84	0	72	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013668--1013719	12	4.3	12	90	0	86	57	0	0	42	0.98
1013668--1013721	15	3.6	15	92	0	81	59	0	0	40	0.98
1014977--1015334	179	2.0	179	100	0	716	23	11	27	36	1.90
1017879--1017938	29	2.1	29	87	0	84	18	28	36	16	1.93
1018145--1018180	11	3.2	11	84	7	54	22	22	19	36	1.95
1018373--1018409	16	2.3	16	90	9	58	32	0	2	64	1.07
1018488--1018552	27	2.4	28	82	7	80	38	0	13	47	1.43
1018950--1019005	26	2.2	26	87	3	78	35	0	14	50	1.43
1021459--1021541	21	4.2	20	68	20	57	53	4	2	39	1.35
1021469--1021541	14	5.0	14	67	20	51	54	4	1	39	1.28
1021469--1021510	17	2.5	17	84	0	57	59	2	0	38	1.10
1021611--1021791	12	14.5	13	74	13	62	43	5	3	48	1.43
1021637--1021977	14	25.5	14	71	21	100	45	7	2	44	1.45
1021637--1022410	26	30.8	26	71	16	353	43	8	2	45	1.49
1021788--1021846	19	3.3	18	80	20	70	49	10	0	40	1.37
1021637--1021977	98	3.5	98	89	4	469	45	7	2	44	1.45
1022109--1022408	14	22.7	14	71	18	198	44	8	2	45	1.46
1022127--1022393	11	21.6	11	71	23	153	44	8	2	44	1.47
1022576--1022715	14	10.9	14	74	17	133	43	8	2	45	1.46
1022576--1022715	26	5.5	26	83	8	171	43	8	2	45	1.46
1022576--1022730	49	3.1	48	83	7	177	43	9	3	44	1.52
1022701--1022744	22	2.0	23	90	4	72	47	15	6	29	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025605--1025633	14	2.0	15	93	6	51	41	13	0	44	1.44
1026047--1026107	27	2.3	27	83	11	81	54	11	0	34	1.37
1026075--1026118	21	2.1	21	91	0	70	54	15	0	29	1.42
1026128--1026153	7	3.7	7	100	0	52	46	38	0	15	1.46
1026832--1026891	29	2.1	29	90	0	93	15	38	31	15	1.88
1030891--1030932	22	1.9	22	85	0	57	35	30	4	28	1.78
1032355--1032405	25	2.0	25	85	7	68	49	1	0	49	1.12
1032367--1032445	27	2.8	28	81	9	81	46	0	0	53	1.00
1032553--1032587	14	2.5	14	95	0	61	45	5	8	40	1.58
1033752--1033807	20	2.7	20	86	5	67	25	28	21	25	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23