genome.fa.s8022.2.7.7.80.10.50.1000.3.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: VEPZ01008022.1 Hibiscus syriacus cultivar Beakdansim tig00110495_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1039607

Tables:   1   2   3   

This is table  3  of  3  ( 359 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)
652404--652458	5	10.8	5	76	21	53	1	18	1	78	0.94
652411--652458	8	5.9	8	83	11	62	2	18	2	77	0.97
652405--652459	16	3.6	15	72	27	53	1	18	1	78	0.94
654400--654552	52	3.0	52	86	3	195	26	19	10	43	1.83
655994--656053	24	2.5	23	77	17	68	70	6	5	18	1.29
656602--656640	20	1.9	21	84	5	53	33	0	38	28	1.57
679550--679710	52	3.1	52	90	2	236	26	19	11	42	1.85
680228--680280	23	2.2	25	86	6	74	67	0	5	26	1.12
680228--680276	19	2.5	20	78	21	59	67	0	6	26	1.14
680646--680697	19	2.6	21	90	6	81	46	7	13	32	1.72
681504--681541	19	2.1	19	85	9	53	39	5	15	39	1.70
683820--683891	34	2.2	32	83	11	85	8	15	2	73	1.18
684144--684192	19	2.5	20	78	21	59	67	0	8	24	1.18
684604--684655	19	2.6	21	87	6	72	46	5	13	34	1.67
688238--688280	20	2.2	20	87	4	61	34	9	6	48	1.62
688620--688707	35	2.5	36	86	1	124	30	36	2	30	1.70
690880--690992	36	3.2	36	91	1	165	31	36	3	28	1.74
690880--690977	13	8.2	11	71	23	65	30	36	3	29	1.73
690963--691031	33	2.1	33	83	5	86	28	36	1	33	1.67
691396--691427	14	2.4	14	94	5	57	12	6	46	34	1.67
700647--700700	24	2.3	22	81	15	56	38	14	14	31	1.87
700945--700987	23	1.9	21	81	13	50	34	13	18	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
701625--701674	14	3.6	14	89	2	66	24	40	0	36	1.55
703707--703746	22	1.9	22	90	10	66	45	10	20	25	1.81
711295--711326	5	6.6	5	96	3	57	0	18	0	81	0.70
711325--711378	23	2.2	25	87	6	76	9	18	12	59	1.60
712879--712918	22	1.9	22	90	10	66	45	10	20	25	1.81
722260--722285	13	2.0	13	100	0	52	30	30	0	38	1.58
728730--728764	16	2.2	16	90	10	54	62	0	25	11	1.28
732891--732941	20	2.6	20	90	3	77	35	15	5	43	1.71
747654--747836	91	2.0	91	89	0	276	31	21	27	19	1.98
751152--751334	91	2.0	91	92	0	303	29	22	27	19	1.98
752207--752261	24	2.3	25	81	6	60	32	16	21	29	1.95
753066--754318	625	2.0	625	99	0	2461	31	17	13	37	1.88
758883--758934	22	2.3	23	93	3	88	28	3	34	32	1.76
758885--758964	36	2.2	38	78	17	98	31	5	32	31	1.79
758903--758974	36	2.0	36	97	0	135	29	5	34	30	1.80
762597--762648	22	2.3	23	90	3	79	28	3	32	34	1.76
762617--762688	36	2.0	36	100	0	126	27	5	36	30	1.80
775984--776041	27	2.2	26	81	12	64	13	13	12	60	1.60
793516--793756	120	2.0	118	97	1	455	42	17	17	22	1.89
796840--796891	19	2.7	19	87	3	68	19	25	28	26	1.98
796840--796889	10	5.1	10	74	13	50	20	22	30	28	1.98
796887--796914	14	2.0	14	100	0	56	21	50	21	7	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
796912--796942	7	4.4	7	91	0	53	16	25	29	29	1.96
797719--797840	60	2.0	60	83	12	153	17	27	28	27	1.97
797719--797840	30	4.1	30	76	11	99	17	27	28	27	1.97
804011--804079	9	7.3	9	76	9	66	15	26	31	26	1.96
804010--804079	19	3.7	19	94	0	122	17	25	31	25	1.97
804075--804102	14	2.0	14	100	0	56	21	50	21	7	1.72
804073--804132	17	3.4	17	80	8	75	18	45	23	13	1.84
804076--804125	22	2.5	19	90	9	73	20	50	22	8	1.74
804122--804159	7	5.4	7	93	0	67	15	26	28	28	1.96
805058--805132	31	2.5	30	72	14	73	20	26	28	25	1.99
805011--805132	63	2.0	61	80	9	140	17	27	28	27	1.97
805711--805753	23	1.9	21	81	13	50	32	18	13	34	1.90
809724--809762	20	2.0	19	85	5	51	48	10	12	28	1.74
817901--817967	19	3.7	18	79	16	68	4	17	5	71	1.23
817917--817964	23	2.1	22	84	3	60	2	18	4	75	1.07
824310--824373	23	2.6	25	78	9	78	65	12	14	7	1.46
826504--826541	19	2.0	19	100	0	76	42	10	15	31	1.81
836943--836985	16	2.7	16	89	7	61	0	20	0	79	0.74
836943--836981	11	3.6	11	86	6	53	0	20	0	79	0.73
848138--848176	20	2.0	19	85	5	51	48	10	12	28	1.74
850467--850508	13	3.4	12	80	12	50	7	14	4	73	1.21
850462--850508	24	1.9	25	87	12	71	6	17	4	72	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
856843--856905	23	2.6	25	80	7	76	66	9	15	7	1.42
856886--856915	14	2.1	14	93	6	51	83	0	16	0	0.65
862055--862170	36	3.2	36	95	1	198	28	1	40	29	1.66
866364--866501	72	1.9	71	81	7	163	21	17	21	39	1.92
883479--883521	16	2.7	16	89	7	61	0	20	0	79	0.74
883479--883517	11	3.6	11	86	6	53	0	20	0	79	0.73
886165--886204	20	1.9	20	85	10	53	32	7	32	27	1.85
886414--886449	15	2.4	15	90	0	54	50	5	0	44	1.25
890425--890464	20	1.9	20	85	10	53	32	7	32	27	1.85
911304--911356	20	2.7	20	85	2	72	37	13	9	39	1.77
914026--914057	16	2.0	16	100	0	64	31	18	6	43	1.75
917427--917458	16	2.0	16	100	0	64	31	18	6	43	1.75
932880--932944	27	2.3	28	76	12	71	6	15	15	63	1.50
937754--937822	33	2.1	33	83	5	86	31	1	36	30	1.67
937808--937904	13	8.0	12	72	22	62	28	3	37	30	1.73
937793--937905	36	3.2	36	92	1	174	27	3	36	32	1.74
938244--938294	19	2.6	20	87	3	68	45	5	15	33	1.71
941315--941385	26	2.9	24	80	15	83	1	16	7	74	1.10
941326--941369	12	3.3	13	78	15	54	2	18	4	75	1.09
941725--941793	33	2.1	33	83	5	86	31	1	36	30	1.67
941775--941876	36	2.9	36	92	1	161	29	3	36	30	1.76
947173--947229	27	2.1	27	83	6	71	12	15	12	59	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
956932--957005	15	4.6	16	69	20	57	4	14	2	78	1.01
956932--956964	16	2.0	17	88	5	50	3	15	0	81	0.80
956933--957005	11	6.2	11	73	10	56	4	13	2	79	0.99
956953--957008	19	3.0	19	82	7	62	5	12	5	76	1.12
960254--960333	35	2.2	36	88	2	117	30	3	36	30	1.75
964336--964382	18	2.6	18	82	3	58	0	10	6	82	0.82
970886--970971	41	2.1	41	95	0	154	51	13	22	12	1.75
976395--976456	10	6.2	9	77	18	61	3	14	3	79	0.99
976390--976456	11	6.5	10	73	11	55	2	14	2	79	0.98
981580--981667	35	2.5	36	88	1	133	30	36	3	29	1.74
981800--981833	16	2.1	17	89	10	54	11	23	0	64	1.26
982033--982082	6	8.2	6	79	16	50	80	4	16	0	0.87
987091--987178	35	2.5	36	83	1	115	30	34	3	31	1.74
989881--989925	11	4.1	11	82	5	56	71	4	11	13	1.29
989881--989922	22	1.9	22	90	9	68	69	4	11	14	1.34
990040--990082	20	2.2	20	100	0	86	25	11	27	34	1.91
994348--994392	11	4.1	11	82	5	56	71	4	11	13	1.29
994348--994389	22	1.9	22	90	9	68	69	4	11	14	1.34
998916--998962	15	3.1	15	100	0	94	21	34	0	44	1.52
998916--998956	8	5.4	8	77	11	50	21	34	0	43	1.53
1004916--1005025	35	3.1	35	86	2	150	32	3	36	27	1.74
1013611--1013655	15	3.1	15	84	9	58	0	13	4	82	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013611--1013652	12	3.4	12	87	12	59	0	14	2	83	0.75
1014045--1014154	35	3.1	35	85	2	141	32	2	35	29	1.72
1018080--1018130	19	2.6	20	93	3	86	45	5	13	35	1.68
1020332--1020448	35	3.3	35	80	3	128	29	32	2	35	1.71
1024404--1024437	16	2.2	16	89	5	52	0	20	0	79	0.73
1024426--1024479	23	2.2	25	87	6	76	9	16	12	61	1.56
1026780--1026829	23	2.1	24	88	3	75	60	12	14	14	1.60
1026790--1026835	24	2.0	23	86	4	65	60	13	15	10	1.58
1035842--1035871	13	2.4	13	94	5	53	43	0	30	26	1.55

Tables:   1   2   3

The End!