genome.fa.s418.2.7.7.80.10.50.1000.2.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: VEPZ01000418.1 Hibiscus syriacus cultivar Beakdansim tig00000765_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  909013

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 524 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)
287589--287723	63	2.2	62	88	10	215	42	0	2	55	1.12
287617--287699	37	2.2	36	85	12	105	44	0	1	54	1.08
287561--287720	62	2.6	63	89	7	231	40	0	2	56	1.12
288239--288298	31	1.9	31	93	0	102	43	10	6	40	1.64
293049--293105	24	2.4	22	75	16	60	26	7	0	66	1.17
293093--293176	2	43.0	2	90	4	136	46	0	1	52	1.08
293238--293334	48	2.0	50	82	8	119	27	3	1	68	1.11
293288--293335	18	2.6	18	78	15	53	27	2	0	70	0.98
293311--293349	17	2.2	18	86	4	53	23	2	0	74	0.94
293329--293412	36	2.3	36	84	11	102	22	3	4	69	1.23
293451--293484	18	1.9	17	88	5	50	17	8	0	73	1.08
293438--293484	17	2.7	17	78	12	51	17	10	0	72	1.12
293521--293566	10	4.7	10	76	15	51	19	2	2	76	1.00
296528--296570	17	2.6	17	82	14	54	83	2	11	2	0.83
296544--296592	20	2.6	19	84	15	66	85	4	8	2	0.79
296544--296593	13	3.9	13	82	7	50	84	4	10	2	0.84
296530--296592	25	2.4	25	84	7	72	82	3	11	3	0.90
296522--296592	28	2.6	29	84	8	94	81	4	11	2	0.93
298008--298082	37	2.0	38	84	2	98	30	21	13	34	1.92
298089--298175	37	2.4	37	86	1	122	24	21	13	40	1.90
298002--298378	102	3.7	102	88	1	479	29	18	12	38	1.88
298191--298416	36	6.4	36	76	11	227	27	18	12	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298226--298531	65	4.5	64	75	10	218	29	19	10	40	1.85
298207--298470	138	1.9	138	91	0	429	26	19	12	41	1.86
298374--298546	67	2.6	67	86	5	219	32	21	8	37	1.83
299147--299528	106	3.6	106	88	0	476	34	23	19	22	1.96
300936--300982	9	5.1	9	82	5	58	38	4	0	57	1.18
301128--301199	36	1.9	36	83	10	92	25	6	4	63	1.37
301229--301273	18	2.6	17	83	13	56	15	13	0	71	1.15
301227--301273	17	2.7	17	81	12	60	14	12	0	72	1.13
306795--306854	30	2.1	30	84	12	81	46	0	0	53	1.00
308404--309030	49	12.6	49	78	5	445	29	16	13	40	1.87
308410--309030	101	6.2	97	75	7	505	30	16	13	40	1.87
308406--309048	150	4.3	149	78	3	587	30	16	13	39	1.87
315504--315782	42	6.5	43	71	7	172	49	6	18	25	1.70
315504--315814	43	7.2	42	68	14	136	50	6	17	26	1.70
319701--319763	31	2.0	31	93	0	108	28	28	9	33	1.88
345916--345968	20	2.7	20	88	8	81	24	50	16	7	1.71
345956--346006	10	5.1	10	77	17	61	21	50	17	9	1.74
345940--346006	30	2.2	30	100	0	134	22	50	17	8	1.74
346484--346521	9	4.2	9	83	10	51	31	0	2	65	1.06
346604--346656	28	1.9	27	88	3	79	32	1	16	49	1.57
346603--346667	27	2.3	29	82	10	82	36	1	15	46	1.55
346783--346837	18	3.4	18	65	31	52	38	0	9	52	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347083--347186	30	3.4	30	82	12	115	39	1	10	48	1.49
349498--349545	14	3.6	14	75	16	57	47	14	0	37	1.44
349517--349738	48	4.4	48	84	12	282	47	11	0	41	1.39
349663--349689	10	2.7	10	100	0	54	40	18	0	40	1.51
349614--349866	60	4.2	60	97	0	474	46	12	0	40	1.42
349732--350189	106	4.1	108	81	11	504	46	12	0	41	1.41
349614--350196	120	5.1	119	82	12	765	46	12	0	40	1.42
349842--349912	10	7.4	10	74	19	53	45	12	0	42	1.42
349812--349913	46	2.2	46	98	0	195	48	10	0	41	1.38
349513--350196	225	3.1	220	87	9	941	46	12	0	41	1.41
349858--350023	59	2.8	60	98	1	325	46	11	0	41	1.40
349957--350190	60	4.3	50	80	16	229	45	13	0	41	1.43
349513--350132	274	2.3	267	89	8	912	46	11	0	41	1.41
350007--350193	60	3.1	59	88	7	288	45	13	0	40	1.44
349566--350205	334	1.9	330	88	6	970	46	12	0	41	1.41
349792--350192	109	3.7	107	77	17	370	46	12	0	41	1.42
353210--353263	28	1.9	28	96	0	99	57	12	0	29	1.36
353206--353270	28	2.3	28	84	10	96	55	10	0	33	1.35
353240--353288	21	2.3	21	85	3	71	53	16	0	30	1.43
353918--354002	28	3.1	28	64	16	79	10	17	45	25	1.81
353905--354010	53	2.0	53	100	0	212	11	18	43	26	1.84
353980--354048	20	3.5	20	95	0	129	8	14	50	26	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354059--354118	29	2.1	29	96	0	111	11	25	41	21	1.87
358800--358834	5	6.8	5	93	3	52	0	14	2	82	0.77
363711--363742	12	2.6	13	85	14	50	50	9	12	28	1.71
368036--368098	25	2.5	26	86	2	92	52	17	7	22	1.70
368686--368782	29	3.4	29	88	2	126	48	10	16	24	1.77
368711--368783	29	2.5	29	97	2	137	47	10	16	24	1.78
370044--370111	29	2.3	29	100	0	136	27	2	19	50	1.62
377097--377238	71	2.0	71	98	1	277	29	18	15	36	1.92
381433--381499	30	2.2	30	82	10	75	53	2	10	32	1.50
387932--388041	36	3.2	36	82	10	106	45	6	6	41	1.55
395912--395956	21	2.1	21	84	8	56	26	11	2	60	1.42
400384--400423	6	7.0	6	97	2	66	30	52	17	0	1.45
401014--401165	21	7.3	20	75	12	110	29	21	22	26	1.99
401025--401164	42	3.4	42	85	8	146	30	22	22	25	1.99
401066--401164	41	2.4	41	90	8	148	31	22	22	24	1.98
404956--405055	31	3.2	31	73	8	96	45	7	10	38	1.65
415403--415506	49	2.3	46	85	11	135	50	14	1	32	1.54
422098--422146	23	2.2	22	82	13	57	48	16	4	30	1.64
426406--426459	15	3.7	15	73	7	58	50	7	11	31	1.66
426399--426483	29	3.0	29	92	1	136	47	5	14	32	1.68
426397--426482	14	6.0	14	66	15	50	46	4	15	33	1.66
426674--426724	26	1.9	27	84	11	70	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426680--426731	19	2.6	19	74	17	52	40	0	0	59	0.97
426827--426877	23	2.2	23	82	0	57	45	1	1	50	1.24
427002--427052	23	2.2	23	89	6	77	45	0	1	52	1.12
427004--427050	18	2.6	19	83	6	53	42	0	2	55	1.12
427042--427087	22	2.1	22	91	0	74	54	0	2	43	1.12
426998--427106	53	2.0	54	84	10	143	50	0	1	47	1.11
427045--427105	22	2.8	21	80	14	61	54	0	1	44	1.10
433603--433630	2	14.0	2	100	0	56	50	0	0	50	1.00
434405--434446	15	2.7	15	76	16	50	64	4	2	28	1.26
435366--435399	15	2.3	15	90	10	52	29	2	0	67	1.05
437172--437212	15	2.9	14	78	7	55	46	0	4	48	1.23
438173--438277	37	2.8	37	88	0	156	40	14	15	30	1.87
438820--438855	2	18.5	2	88	5	56	44	0	0	55	0.99
439006--439047	22	2.0	22	81	13	52	21	2	9	66	1.32
439056--439106	18	2.6	19	79	11	59	29	3	3	62	1.31
439123--439165	21	2.0	21	86	0	59	30	4	0	65	1.13
439159--439223	16	4.1	15	78	7	58	13	9	0	76	1.00
439146--439223	16	4.9	16	72	17	56	16	7	0	75	1.02
445396--446667	106	12.0	106	93	0	2040	34	25	18	22	1.96
448257--448294	19	2.0	20	89	5	60	28	5	0	65	1.14
448325--448360	2	18.0	2	100	0	72	50	0	0	50	1.00
448379--448419	15	2.6	16	81	14	50	17	7	0	75	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456469--456716	85	3.0	82	87	5	376	46	6	6	39	1.56
470262--470295	18	1.9	18	88	5	52	58	5	14	20	1.57
480488--480609	64	1.9	64	83	5	156	23	18	24	32	1.97
484267--484292	11	2.4	11	100	0	52	38	0	19	42	1.51
486492--486551	31	1.9	32	96	3	113	45	20	6	28	1.76
486713--486758	22	2.1	22	88	4	67	23	4	10	60	1.47
487723--487772	3	17.0	3	91	4	84	64	0	2	34	1.05
491775--491841	2	34.0	2	96	3	127	50	0	0	49	1.00
515147--515185	17	2.2	18	95	4	71	35	10	15	38	1.81
520653--520700	23	2.1	23	88	0	69	35	12	18	33	1.89

Tables:   1   2   3   4   5