genome.fa.s8356.2.7.7.80.10.50.1000.6.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  6  of  56  ( 6656 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)
969638--969678	22	1.9	21	85	5	55	56	0	4	39	1.21
970558--970596	20	2.0	20	89	0	60	35	5	0	58	1.20
970565--970633	3	24.0	3	76	8	63	39	2	1	56	1.23
970570--970631	17	3.8	17	75	12	67	38	3	1	56	1.25
975924--975981	9	6.6	9	86	9	84	77	0	8	13	0.98
975919--975981	16	3.7	17	83	12	85	77	0	9	12	0.98
976984--977019	16	2.2	17	90	5	56	44	0	27	27	1.55
977178--977538	54	6.6	55	85	3	444	33	13	22	31	1.92
977178--977589	217	1.9	218	82	7	516	33	14	22	29	1.93
977505--977769	55	4.9	56	88	5	350	33	19	24	21	1.97
977450--977706	109	2.4	108	80	10	265	36	16	22	24	1.94
977505--977769	109	2.4	110	84	9	364	33	19	24	21	1.97
977943--978015	23	3.5	20	75	14	67	38	4	1	56	1.27
977943--978015	14	5.2	13	79	11	65	38	4	1	56	1.27
977950--978015	3	23.0	3	75	9	57	39	3	1	56	1.24
985421--985458	20	1.9	20	94	0	67	23	15	28	31	1.96
986048--986099	21	2.5	21	81	3	61	38	19	25	17	1.93
986088--986182	20	4.7	20	77	2	82	35	24	16	23	1.95
986370--986413	22	2.0	22	95	0	79	20	45	15	18	1.85
986658--986695	20	1.9	20	88	0	58	13	15	21	50	1.78
988015--988059	18	2.5	18	88	0	72	26	44	15	13	1.83
988532--988573	20	2.1	20	86	0	57	33	26	21	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988543--988586	20	2.2	20	84	4	54	36	20	22	20	1.95
988575--988661	32	2.7	33	94	3	158	48	21	18	11	1.79
988575--988666	14	5.4	19	67	26	80	46	21	19	11	1.82
988678--988735	14	3.9	14	77	16	62	10	17	24	48	1.78
988673--988751	32	2.4	32	93	2	131	11	18	22	46	1.81
988692--988809	20	6.4	19	77	11	95	13	20	24	41	1.88
989250--989274	12	2.1	12	100	0	50	0	28	0	72	0.86
990558--990614	20	2.9	20	89	2	80	38	22	21	17	1.93
990638--990691	14	3.5	14	77	22	63	11	20	20	48	1.80
990620--990690	33	2.2	33	84	0	88	19	19	21	39	1.93
990633--990710	33	2.4	33	91	0	120	12	23	21	42	1.87
992699--992765	19	3.5	19	79	4	80	37	22	23	16	1.94
992754--992811	14	3.9	14	79	16	71	48	25	17	8	1.75
992738--992816	32	2.4	33	95	2	142	46	24	18	10	1.80
992845--992902	14	3.9	14	79	16	71	10	17	24	48	1.78
992828--992918	32	2.8	33	94	3	166	12	18	21	47	1.81
992903--992946	20	2.2	20	88	4	63	18	22	20	38	1.93
993430--993469	18	2.2	18	90	0	62	15	12	45	27	1.82
994794--994831	20	1.9	20	88	0	58	50	21	15	13	1.78
995095--995138	22	2.0	22	90	0	70	20	15	43	20	1.88
995325--995418	20	4.7	20	80	2	89	23	18	24	34	1.96
995345--995422	41	1.9	41	86	0	111	21	16	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
995305--995419	20	5.7	20	78	5	88	23	17	23	35	1.95
995388--995500	41	2.8	41	90	5	149	19	23	18	38	1.93
995408--995500	20	4.5	21	81	4	109	18	24	17	39	1.91
997702--997732	15	2.1	15	100	0	62	48	6	6	38	1.55
998055--998126	20	3.7	20	92	1	119	15	22	30	31	1.94
1003613--1003654	18	2.4	18	76	4	50	57	4	14	23	1.56
1003926--1003979	20	2.7	20	100	0	108	16	20	29	33	1.95
1003946--1004032	45	1.9	46	92	2	149	27	19	25	27	1.99
1004052--1004089	20	1.9	20	94	0	67	18	15	34	31	1.92
1004803--1004843	22	2.0	22	90	9	68	73	2	0	24	0.96
1005556--1005622	19	3.8	18	71	16	59	35	1	0	62	1.04
1006605--1006670	34	1.9	34	93	0	114	43	13	7	34	1.73
1011434--1011691	118	2.2	115	88	4	385	37	14	18	29	1.90
1014879--1014951	21	3.3	21	67	29	62	45	5	9	39	1.60
1014880--1015037	45	3.5	45	87	4	228	43	6	12	37	1.69
1015009--1015061	18	2.9	18	91	2	79	47	0	7	45	1.31
1015021--1015061	9	4.6	9	81	0	55	48	0	7	43	1.30
1015048--1015139	45	2.0	45	93	0	157	33	14	10	41	1.80
1018633--1018672	17	2.4	17	83	8	55	50	0	5	45	1.23
1018700--1018827	66	2.0	64	89	7	199	43	3	6	46	1.44
1018783--1019036	36	7.0	36	81	10	259	44	3	5	46	1.45
1018748--1019036	38	7.8	37	80	12	283	43	3	5	47	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018748--1019036	74	3.9	73	81	10	281	43	3	5	47	1.44
1018777--1019097	36	8.9	35	73	12	174	45	3	4	46	1.40
1019659--1019707	17	3.0	17	82	17	68	24	2	0	73	0.94
1025124--1025314	100	1.9	99	85	1	265	35	16	17	30	1.92
1026539--1027185	80	7.9	80	82	4	652	32	23	17	25	1.97
1027759--1027800	2	22.5	2	81	13	54	47	0	2	50	1.14
1027788--1027886	39	2.6	38	84	10	123	45	4	6	44	1.47
1027788--1028091	36	8.5	37	72	18	198	43	3	5	47	1.44
1027827--1027956	65	2.0	65	90	1	208	41	3	6	49	1.43
1027878--1028091	37	5.7	39	78	15	213	42	3	5	48	1.42
1027858--1028137	145	2.0	137	81	10	323	45	2	5	46	1.39
1028130--1028176	21	2.2	22	88	7	71	38	0	4	57	1.18
1029476--1029571	4	24.2	4	70	23	53	18	4	1	76	1.01
1029480--1029571	14	6.6	14	72	14	73	18	4	1	76	1.02
1029482--1029531	17	2.9	17	80	11	57	20	6	0	74	1.03
1029476--1029543	16	4.4	16	75	17	63	17	5	0	76	0.98
1029465--1029552	46	1.9	46	81	9	108	20	5	1	72	1.11
1029470--1029579	24	4.6	24	69	10	59	18	4	1	75	1.06
1037332--1037371	16	2.4	16	87	8	53	50	5	2	42	1.37
1037939--1038478	253	2.1	253	87	1	760	24	19	23	32	1.97
1038439--1038687	104	2.4	106	84	2	333	24	20	23	31	1.98
1041634--1041675	16	2.6	16	100	0	84	30	42	4	21	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043631--1043673	16	2.6	16	88	7	59	48	2	2	46	1.27
1044347--1044439	20	4.7	20	85	4	134	46	20	19	13	1.84
1044401--1044531	57	2.3	57	90	0	199	42	19	17	20	1.89
1044487--1044568	37	2.2	37	91	0	128	40	23	14	21	1.90
1045711--1045751	20	2.0	20	86	9	57	26	4	12	56	1.56
1049943--1050008	19	3.5	19	91	0	87	36	13	10	39	1.80
1050072--1050131	29	2.0	31	90	6	97	41	16	6	35	1.75
1061417--1061475	22	2.6	22	76	10	57	57	5	0	37	1.21
1066181--1066233	2	26.5	2	100	0	106	49	0	0	50	1.00
1067542--1067572	12	2.6	12	100	0	62	77	0	6	16	0.97
1067977--1068508	266	2.0	265	98	0	1019	38	15	10	35	1.82
1076811--1076957	40	3.7	40	92	2	242	21	16	25	37	1.93
1076835--1076905	19	3.6	19	75	14	81	15	21	25	38	1.92
1077067--1077139	20	3.6	20	92	1	119	43	21	24	9	1.82
1077064--1077160	41	2.4	42	82	5	126	40	23	21	14	1.90
1077128--1077181	21	2.6	21	100	0	108	29	29	16	24	1.97
1077067--1077189	21	6.0	21	87	1	106	39	24	20	16	1.92
1077197--1077240	18	2.3	19	80	11	54	29	18	29	22	1.97
1078606--1078663	19	3.1	18	85	9	71	24	13	22	39	1.90
1078989--1079024	7	5.1	7	96	0	63	61	0	0	38	0.96
1088193--1088247	21	2.6	22	91	8	96	18	21	30	29	1.97
1088662--1088699	17	2.1	18	85	9	51	55	7	2	34	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092171--1092229	3	19.7	3	80	13	68	62	0	0	37	0.95
1092163--1092229	24	2.8	25	93	4	111	61	0	0	38	0.96
1092359--1092792	76	5.8	76	95	1	761	34	21	21	22	1.97
1092724--1093125	45	8.5	45	73	15	287	34	21	21	22	1.97
1092650--1092958	166	1.9	166	95	2	559	33	21	22	22	1.97
1092816--1093034	76	2.9	76	94	1	379	35	21	21	22	1.96
1092574--1093430	242	3.6	243	88	6	1129	35	21	21	22	1.96
1093059--1093430	76	4.9	76	75	11	402	36	20	20	22	1.96
1092574--1093278	122	5.8	122	75	11	723	35	21	21	22	1.96
1092890--1093354	167	2.9	166	89	6	679	35	21	21	22	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56