genome.fa.s8227.2.7.7.80.10.50.1000.2.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: VEPZ01008227.1 Hibiscus syriacus cultivar Beakdansim tig00110863_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  654371

Tables:   1   2   3   

This is table  2  of  3  ( 301 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)
261899--261968	20	3.4	20	76	7	68	31	28	12	27	1.93
262019--262067	20	2.5	20	89	0	80	44	22	12	20	1.84
262219--262265	22	2.1	22	96	0	85	17	46	19	17	1.84
264142--264239	42	2.3	42	82	0	115	29	33	17	19	1.95
264355--264404	21	2.4	21	86	0	73	18	14	34	34	1.90
264811--264908	21	4.7	21	90	7	146	21	36	18	23	1.95
265728--265764	18	2.1	18	100	0	74	32	5	21	40	1.76
266324--266359	16	2.2	16	90	0	54	19	0	13	66	1.24
266334--266367	16	2.1	16	88	5	50	20	2	14	61	1.46
266735--266770	18	2.0	18	94	0	63	16	2	25	55	1.55
266879--266912	17	2.0	17	100	0	68	17	47	5	29	1.71
267793--267861	23	3.0	23	86	0	102	30	24	24	20	1.99
269525--269574	21	2.4	21	96	0	91	30	18	26	26	1.98
269525--269581	21	2.7	21	91	0	78	31	19	24	24	1.98
273073--273197	47	2.8	46	83	7	141	32	20	6	40	1.78
275545--275622	24	3.2	24	92	0	120	38	17	20	23	1.93
276567--276663	40	2.4	42	83	8	121	36	12	22	28	1.91
276536--276674	20	7.1	20	71	13	83	38	11	22	28	1.89
276667--276744	21	3.8	20	69	15	52	30	14	24	30	1.94
276657--276811	82	1.9	81	84	6	206	32	11	26	29	1.91
276770--276829	20	3.0	20	78	4	59	25	10	31	33	1.89
277064--277090	13	2.1	13	100	0	54	14	7	0	77	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277215--277271	29	2.0	29	89	0	87	50	1	26	21	1.58
283782--283824	22	2.0	22	86	9	61	44	0	2	53	1.13
284374--284403	2	15.0	2	100	0	60	50	0	0	50	1.00
284538--284603	29	2.3	29	94	0	114	57	3	18	21	1.53
284637--284715	29	2.7	29	92	0	122	29	24	10	36	1.88
285072--285109	17	2.2	17	90	9	60	34	0	2	63	1.09
290000--290044	23	1.9	24	86	4	65	28	2	20	48	1.61
290760--290817	20	2.6	23	86	10	77	32	18	20	27	1.97
292258--292322	23	2.9	23	82	11	73	27	15	21	35	1.94
295470--295511	20	2.0	20	86	4	57	35	0	26	38	1.57
295630--295763	61	2.2	61	80	9	146	32	18	23	25	1.97
295751--295808	20	2.6	22	86	10	75	31	18	22	27	1.97
303584--303688	50	2.1	50	87	0	147	13	35	28	22	1.92
303968--304188	110	2.0	111	93	0	381	35	8	10	44	1.70
306059--306123	6	11.8	6	72	18	61	32	15	33	18	1.92
306061--306128	21	3.2	21	89	0	109	33	16	33	16	1.91
306059--306101	9	4.8	9	79	0	50	32	13	34	18	1.90
310021--310121	50	2.0	50	80	0	112	24	24	30	19	1.98
316272--316306	3	11.7	3	93	0	61	31	0	2	65	1.07
316535--316573	20	2.0	19	90	5	60	7	17	20	53	1.68
317316--317407	41	2.2	41	88	5	132	42	23	18	15	1.88
320480--320516	15	2.5	15	90	0	56	5	16	67	10	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
325827--325885	23	2.6	23	88	0	100	15	27	27	30	1.96
330883--330937	23	2.4	23	96	0	101	16	27	27	29	1.97
332146--332186	16	2.5	17	76	11	50	9	21	4	63	1.44
333571--333657	31	2.8	30	83	10	104	42	0	3	54	1.17
334369--334455	31	2.8	31	77	10	97	54	2	0	43	1.13
334388--334455	20	3.3	20	76	17	68	51	2	0	45	1.16
334831--334855	6	4.2	6	100	0	50	84	0	0	16	0.63
345149--345187	15	2.6	15	83	0	60	43	10	12	33	1.77
347446--347526	18	4.4	18	84	6	117	17	20	30	30	1.96
347446--347534	38	2.4	38	86	3	128	20	20	30	29	1.97
353680--353837	63	2.5	63	84	3	183	34	22	20	22	1.97
353823--353902	24	3.5	24	74	19	98	30	25	22	22	1.99
353821--353920	44	2.3	44	92	0	164	29	22	25	24	1.99
354286--354340	21	2.7	20	80	11	58	41	3	18	36	1.68
354444--354502	18	3.2	18	81	9	82	20	20	30	28	1.97
355131--355219	18	4.8	18	87	5	133	28	30	22	19	1.98
355130--355219	38	2.4	37	87	7	130	27	30	22	20	1.98
355325--355379	21	2.7	20	80	11	58	36	18	3	41	1.68
355735--355788	21	2.6	21	100	0	108	18	38	24	18	1.93
361560--361620	23	2.9	21	82	7	61	21	32	26	19	1.97
361562--361643	21	3.8	22	76	9	71	21	35	24	18	1.96
365417--365578	63	2.5	64	85	3	193	22	20	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
371725--371833	18	5.9	18	90	4	164	27	32	20	20	1.97
371928--371982	21	2.7	20	80	11	58	36	18	3	41	1.68
372378--372533	62	2.5	64	82	6	176	22	20	22	34	1.97
373016--373042	13	2.1	13	100	0	54	29	29	11	29	1.91
373942--373973	16	2.0	16	100	0	64	56	25	12	6	1.59
376445--376471	9	3.0	9	100	0	54	55	11	22	11	1.66
381510--381562	22	2.4	22	93	0	88	33	9	18	37	1.83
383057--383084	13	2.2	13	100	0	56	28	32	7	32	1.84
384016--384050	3	11.7	3	93	0	61	71	0	0	28	0.86
386713--386742	15	2.0	15	100	0	60	40	6	6	46	1.56
394670--394910	127	1.9	126	96	2	448	28	14	16	40	1.88
397874--397904	15	2.1	15	100	0	62	25	12	0	61	1.32
401728--401755	2	14.0	2	100	0	56	50	0	0	50	1.00
408953--408995	20	2.2	20	91	0	68	32	11	20	34	1.89
413611--413642	16	1.9	17	93	6	57	87	0	6	6	0.67
413618--413648	11	2.9	11	95	4	55	83	0	9	6	0.79
418534--418558	5	5.0	5	100	0	50	0	0	60	40	0.97
429765--429798	17	2.0	17	94	0	59	17	14	17	50	1.79
433808--433910	35	2.9	36	76	20	94	57	7	7	27	1.54
433924--434014	49	1.9	49	84	8	127	65	4	4	25	1.29
434110--434149	21	1.9	21	90	10	64	12	37	22	27	1.90
434896--435002	49	2.2	49	82	1	133	20	26	34	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435032--435094	29	2.1	29	82	8	74	38	14	19	28	1.90
435626--435719	32	3.0	31	75	13	95	41	5	8	44	1.57
435638--435720	31	2.6	34	78	14	97	42	6	7	44	1.56
446630--446679	23	2.2	22	82	13	57	42	18	0	40	1.50
447636--447670	7	5.0	7	100	0	70	28	28	28	14	1.95
455038--455259	111	2.0	111	92	0	372	45	10	7	36	1.68
455523--455649	51	2.5	50	85	1	164	18	29	34	17	1.94
456186--456235	21	2.4	20	80	9	64	10	26	14	50	1.73
468592--468637	2	24.0	2	91	8	78	52	0	0	47	1.00
470955--470983	7	4.1	7	100	0	58	27	27	13	31	1.94
471686--471739	28	1.9	28	92	0	90	20	7	22	50	1.73
472309--472373	16	3.9	16	77	4	67	27	30	6	35	1.81
473594--473677	42	2.0	42	95	0	150	39	22	25	13	1.90
475084--475358	68	4.0	68	87	0	388	33	13	23	30	1.92
475290--475676	80	5.0	78	79	10	348	36	11	24	27	1.89
475441--475581	70	2.0	70	90	0	219	36	9	25	27	1.88
475357--475647	151	1.9	150	85	0	402	36	10	25	28	1.88
477266--477312	10	5.1	10	80	19	66	59	21	10	8	1.57
477280--477312	16	2.1	16	100	0	66	57	24	12	6	1.57
477385--477453	16	4.3	16	90	0	111	60	21	7	10	1.52
478079--478144	14	5.0	14	76	14	68	54	19	12	13	1.70
478091--478143	24	2.2	25	83	10	74	52	22	11	13	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478337--478495	64	2.5	63	83	7	196	26	17	23	32	1.97
479677--479836	65	2.5	63	83	6	196	30	23	18	27	1.98
479808--479856	19	2.6	19	84	9	57	24	28	20	26	1.99
486375--486444	34	2.1	32	89	5	104	21	31	15	31	1.95
486726--486767	21	2.0	21	95	0	75	26	28	21	23	1.99
486942--487032	31	3.0	31	93	3	159	42	16	6	34	1.74
487858--487895	19	2.0	19	100	0	76	36	21	10	31	1.87
488099--488189	31	3.0	31	93	3	159	42	16	6	34	1.74
490058--490087	10	3.0	10	95	0	51	30	0	23	46	1.52
490410--490619	65	3.2	64	77	11	214	30	23	19	26	1.98

Tables:   1   2   3