genome.fa.s9350.2.7.7.80.10.50.1000.1.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: VEPZ01009350.1 Hibiscus syriacus cultivar Beakdansim tig00113145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2139524

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1079 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)
21--101087	816	122.6	806	73	14	42077	35	15	18	31	1.92
13455--19666	792	7.8	806	92	5	10218	35	14	19	30	1.92
23271--23315	22	2.0	22	82	0	54	37	22	11	28	1.88
19661--26718	802	8.8	813	91	5	11052	35	14	18	31	1.92
24870--24914	22	2.0	22	82	0	54	37	22	11	28	1.88
33110--33153	21	2.0	22	82	4	54	36	22	11	29	1.89
36347--36391	22	2.0	22	82	0	54	37	22	11	28	1.88
39589--39633	22	2.0	22	82	0	54	37	22	11	28	1.88
65004--65040	14	2.6	14	95	4	65	0	10	8	81	0.89
64986--65057	15	4.4	16	83	15	78	0	8	12	79	0.94
73871--101087	815	33.4	816	93	0	45213	35	14	18	31	1.91
100484--101691	604	2.0	604	93	0	2074	35	14	20	29	1.92
101088--103621	817	3.1	814	92	0	4215	34	14	18	31	1.92
114593--114645	1	53.0	1	86	0	70	0	1	5	92	0.45
114593--114645	12	4.2	13	88	7	83	0	1	5	92	0.45
114585--114635	22	2.3	22	93	3	84	0	3	7	88	0.63
116149--116196	8	5.9	8	83	11	62	0	22	2	75	0.91
117788--117820	2	16.5	2	100	0	66	48	0	0	51	1.00
117992--121258	816	4.0	816	92	0	5305	35	14	19	31	1.91
127409--130149	809	3.4	806	90	4	4062	35	14	18	31	1.91
130144--137918	815	9.4	815	79	11	7995	35	14	18	31	1.91
134806--134839	18	1.9	17	88	5	50	52	23	8	14	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
130144--133735	804	4.5	815	92	3	5525	35	14	18	31	1.92
138389--138422	18	1.9	17	88	5	50	52	23	8	14	1.69
140771--144267	796	4.4	803	89	5	5119	35	14	18	31	1.91
150283--153473	816	3.9	816	92	2	5052	36	14	18	30	1.91
155370--155466	26	3.7	26	94	0	176	24	19	36	19	1.95
158261--158301	16	2.6	16	84	0	55	70	0	14	14	1.16
162405--162444	21	1.9	21	85	10	55	30	12	7	50	1.68
163160--166206	812	3.7	814	92	1	4684	36	14	18	30	1.91
168670--168749	36	2.2	36	93	0	133	28	3	37	30	1.75
172292--172492	101	2.0	101	93	0	339	31	19	22	26	1.98
172735--172820	11	7.2	12	74	22	67	29	2	37	31	1.70
172717--172821	36	2.9	36	94	1	176	28	3	36	31	1.75
174527--174606	36	2.2	36	93	0	133	28	3	37	30	1.75
185423--185476	23	2.3	24	87	3	83	62	11	16	9	1.52
185423--185482	24	2.6	23	81	7	77	63	10	18	8	1.50
186747--186798	24	2.2	24	82	0	59	28	21	19	30	1.97
209502--220890	816	13.9	815	92	2	18063	31	19	14	35	1.91
220901--224995	686	6.0	688	89	1	6020	30	20	11	38	1.88
224196--225904	569	3.0	566	77	9	1949	29	21	11	38	1.87
224415--226131	569	3.0	566	76	9	1933	29	21	11	37	1.88
225337--228519	686	4.6	687	88	1	4687	29	20	11	37	1.89
228023--229067	548	1.9	549	89	1	1644	29	19	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
228560--232829	688	6.3	688	87	2	6071	30	20	11	36	1.89
232820--234818	688	2.9	687	89	1	3002	29	21	11	37	1.89
234828--242083	815	8.9	815	95	0	12449	31	18	13	35	1.90
242083--297952	815	67.8	815	81	9	52945	31	19	13	35	1.90
297928--297971	15	3.1	15	87	12	74	22	15	27	34	1.95
297971--300301	816	2.9	814	87	4	3258	31	18	13	36	1.90
302646--302698	25	2.1	26	82	3	63	58	7	3	30	1.43
300660--304539	812	4.7	824	91	2	6293	31	18	13	35	1.91
308405--308435	11	2.8	11	95	0	53	29	19	6	45	1.75
312067--312091	10	2.5	10	100	0	50	92	8	0	0	0.40
316584--327020	815	12.8	815	93	1	17482	35	13	19	31	1.90
330038--330067	15	2.0	15	93	0	51	10	66	16	6	1.41
333643--333813	81	2.1	82	75	3	175	32	15	15	36	1.88
333744--333821	40	2.0	40	82	10	97	30	14	17	37	1.90
338398--338441	19	2.2	20	80	4	54	79	13	6	0	0.92
348028--348242	45	4.7	45	82	3	259	32	18	6	41	1.77
348024--348242	93	2.4	90	86	3	314	32	18	6	41	1.77
348178--348328	80	1.9	80	83	5	198	28	23	8	39	1.84
354886--355096	45	4.7	45	85	0	235	29	18	8	43	1.79
354883--355097	90	2.4	89	81	1	259	29	18	8	43	1.79
355615--355665	19	2.7	19	90	0	75	25	21	19	33	1.97
358010--358075	28	2.4	28	97	0	123	24	31	24	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361167--361249	24	3.5	24	89	0	130	33	15	24	26	1.95
361717--361945	45	5.1	45	85	0	163	43	8	18	28	1.80
361725--361936	90	2.4	90	87	0	298	41	9	19	29	1.82
362574--362614	22	1.9	22	85	5	57	36	2	17	43	1.62
369120--369148	14	2.0	15	93	6	51	0	27	3	68	1.05
378047--378085	20	2.0	20	85	5	53	33	20	20	25	1.97
381158--381218	32	1.9	32	89	0	95	32	11	21	34	1.89
382733--382765	17	2.0	16	94	5	57	30	36	6	27	1.81
386151--386205	13	4.3	12	76	13	56	20	3	3	72	1.15
388959--388999	20	2.0	20	95	0	73	34	31	14	19	1.92
389613--389656	18	2.4	18	88	0	61	15	6	36	40	1.74
395222--395265	18	2.4	18	88	0	61	15	4	38	40	1.68
400543--400568	9	2.9	9	100	0	52	7	0	0	92	0.39
400878--400921	18	2.4	18	88	0	61	15	4	38	40	1.68
405867--405905	17	2.3	16	83	12	51	58	33	0	7	1.26
406189--406232	18	2.4	18	88	0	61	18	4	36	40	1.71
411714--411757	18	2.4	18	84	0	52	18	6	34	40	1.77
415456--415604	65	2.3	65	87	2	201	30	18	21	29	1.97
415476--415612	65	2.1	65	89	2	204	31	17	21	29	1.96
418177--418229	23	2.4	23	87	9	76	33	24	22	18	1.97
423917--424066	65	2.3	65	85	4	196	31	18	21	28	1.97
425134--425405	47	5.7	47	78	11	241	45	13	19	20	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425167--425401	27	9.5	27	72	17	199	45	13	20	20	1.84
425134--425355	74	3.0	74	92	1	365	46	12	19	21	1.83
425268--425428	47	3.4	46	88	7	211	42	14	21	21	1.88
428860--428903	18	2.4	19	92	3	72	79	9	0	11	0.93
428861--428905	10	4.6	10	83	13	58	82	8	0	8	0.85
435690--435794	37	2.8	37	85	0	138	40	14	14	30	1.85
436364--436434	24	2.8	25	75	12	65	23	5	2	67	1.25
436495--436535	11	3.6	11	87	6	55	24	4	4	65	1.32
437065--437141	25	3.1	23	75	14	73	14	3	2	79	0.99
437098--437159	26	2.4	26	78	10	65	14	8	3	74	1.18
437065--437141	13	6.2	12	72	11	57	14	3	2	79	0.99
438291--438328	19	2.0	20	89	5	60	7	23	0	68	1.16
441583--441649	16	4.2	15	77	22	66	82	7	7	2	0.94
441587--441652	14	4.9	13	78	7	60	81	6	9	3	0.95
441582--441629	14	3.2	14	83	13	60	85	6	6	2	0.81
441589--441644	28	2.0	29	82	3	69	82	7	7	3	0.95
443114--444484	106	13.0	106	88	2	1881	34	24	18	23	1.96
445208--445311	37	2.8	37	83	0	136	41	14	13	30	1.84
445881--445988	22	4.9	23	72	21	88	27	5	0	65	1.21
445940--445991	25	2.0	28	88	11	83	28	0	1	69	0.99
446058--446094	2	18.5	2	100	0	74	48	0	0	51	1.00
446608--446687	30	2.7	28	75	14	81	13	3	3	78	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446648--446746	29	3.3	30	70	20	82	16	10	3	70	1.27
452316--452355	19	2.1	19	86	9	55	72	7	10	10	1.28
453032--453455	58	7.3	58	88	2	604	35	18	12	33	1.89
455540--455582	15	2.8	15	80	16	52	30	6	6	55	1.53
461854--462333	58	8.3	57	90	3	678	35	20	13	31	1.91
461847--462333	174	2.8	174	91	1	755	35	19	13	31	1.91
462550--462604	22	2.7	20	83	10	74	25	30	14	29	1.95
462610--462749	72	1.9	74	86	5	203	25	18	18	37	1.94
463478--463547	33	2.1	33	89	5	106	25	31	14	28	1.95
464186--464242	21	2.7	21	97	0	105	28	28	24	19	1.98

Tables:   1   2   3   4   5   6   7   8   9