genome.fa.s9405.2.7.7.80.10.50.1000.3.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: VEPZ01009405.1 Hibiscus syriacus cultivar Beakdansim tig00113337_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1310060

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 657 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)
393868--393953	33	2.6	33	88	3	129	39	17	13	29	1.88
394308--394334	2	13.5	2	100	0	54	48	0	0	51	1.00
394331--394374	14	2.7	18	70	29	53	34	0	0	65	0.93
394336--394375	14	2.9	14	82	17	57	35	0	0	65	0.93
397592--397626	16	2.2	16	100	0	70	54	22	0	22	1.45
397902--397959	27	2.1	27	90	0	89	24	24	18	32	1.97
406948--406984	19	1.9	19	94	0	65	32	29	16	21	1.95
407094--407181	20	4.4	20	100	0	176	25	25	20	29	1.99
407329--407380	16	3.1	17	78	13	63	59	3	0	36	1.16
407914--407974	21	3.0	20	92	4	97	29	26	26	18	1.98
408034--408079	19	2.4	19	85	3	56	21	17	30	30	1.96
408045--408081	19	1.9	19	94	0	65	21	16	29	32	1.95
413969--414295	162	2.0	165	98	1	633	29	24	18	26	1.98
415797--415867	36	2.0	36	86	5	99	19	19	16	43	1.88
418346--418372	3	9.0	3	100	0	54	33	0	0	66	0.92
424571--424608	17	2.2	18	85	4	51	63	0	0	36	0.95
426759--426788	15	2.0	15	93	0	51	23	0	0	76	0.78
431968--432053	38	2.3	37	78	15	88	47	1	1	50	1.16
432031--432100	21	3.3	20	67	11	50	41	1	1	55	1.17
432061--432118	29	2.0	29	86	0	80	44	1	0	53	1.10
432271--432372	9	10.6	9	69	19	55	50	0	0	47	1.14
432265--432333	16	4.7	15	73	14	56	52	0	1	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432248--432380	42	3.4	40	77	17	129	48	0	0	49	1.11
441013--441050	2	19.0	2	100	0	76	50	0	0	50	1.00
446516--446554	20	2.0	20	84	0	51	35	12	7	43	1.72
447084--447131	20	2.4	20	75	6	53	16	20	12	50	1.78
446909--447360	182	2.5	182	88	0	661	27	14	12	44	1.82
447232--447693	112	4.1	112	93	0	708	26	14	13	45	1.81
451958--452036	35	2.3	35	100	0	158	26	34	20	18	1.96
454825--454883	26	2.3	24	78	16	64	40	3	8	47	1.51
455689--455751	28	2.2	30	91	5	103	57	11	0	31	1.34
455693--455758	28	2.4	28	85	10	98	56	10	0	33	1.34
455728--455776	21	2.3	21	85	3	71	53	16	0	30	1.43
456257--456435	15	11.1	15	73	16	144	17	53	7	21	1.69
456230--456370	50	2.8	51	93	5	245	18	53	7	20	1.69
456230--456443	50	4.3	49	82	10	224	17	52	8	21	1.71
456252--456443	65	2.9	64	82	11	203	17	53	8	21	1.70
456258--456435	82	2.2	82	82	6	218	17	52	7	21	1.70
456322--456448	65	1.9	66	95	3	229	16	50	9	23	1.74
456481--456627	29	5.1	29	100	0	294	17	37	31	13	1.89
461574--461610	12	3.0	13	84	15	60	59	16	0	24	1.37
461567--461630	24	2.7	24	77	0	74	56	18	6	18	1.62
461567--461675	48	2.3	47	82	3	119	49	17	11	21	1.78
461619--461675	24	2.4	25	76	8	64	43	15	19	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463402--463474	36	2.0	36	94	0	128	30	19	9	41	1.83
466224--466397	60	2.9	60	74	5	147	29	19	6	43	1.77
466602--466658	29	2.0	29	82	6	71	42	5	17	35	1.72
471507--471531	2	12.5	2	100	0	50	48	0	0	52	1.00
473208--473547	168	2.0	171	97	1	650	21	20	20	37	1.95
473549--473598	3	16.7	3	100	0	100	68	0	0	32	0.90
474835--474865	15	2.1	15	93	0	53	41	16	6	35	1.74
478866--478901	18	1.9	18	88	5	54	61	0	2	36	1.11
481580--481644	2	33.0	2	96	3	123	49	0	0	50	1.00
485867--485950	31	2.7	31	81	3	98	42	10	4	41	1.60
492956--492980	2	12.5	2	100	0	50	52	0	48	0	1.00
500899--500932	15	2.3	15	90	10	52	58	0	2	38	1.13
500889--500945	23	2.6	22	77	5	62	54	0	5	40	1.23
506230--506270	14	2.9	14	88	0	64	9	12	21	56	1.65
513539--513632	14	6.4	15	72	15	63	72	5	7	14	1.25
513642--513755	9	12.2	9	75	10	77	76	3	4	15	1.09
513596--513673	31	2.6	30	78	11	81	74	3	6	15	1.17
513569--513755	14	13.4	14	70	20	99	74	3	5	15	1.15
513569--513766	19	10.3	18	73	15	98	74	4	6	15	1.17
513832--513879	23	2.1	22	84	3	60	64	4	6	25	1.35
525943--525967	2	12.5	2	100	0	50	48	0	0	52	1.00
526502--526533	6	5.3	6	100	0	64	0	37	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533534--533576	20	2.1	21	91	4	70	27	18	11	41	1.85
538157--538196	21	2.0	21	95	5	73	25	20	15	40	1.90
539320--539350	16	1.9	16	100	0	62	51	19	9	19	1.74
539884--540022	70	2.0	69	95	4	253	28	22	23	26	1.99
560289--560325	2	18.5	2	100	0	74	51	0	0	48	1.00
566019--566157	60	2.3	60	82	0	152	38	11	15	33	1.84
571784--571825	20	2.1	20	82	8	50	30	2	4	61	1.29
572123--572216	40	2.3	40	88	0	143	23	18	7	51	1.71
577631--577687	13	3.9	14	75	13	53	38	3	0	57	1.16
579643--579901	28	9.3	28	89	3	362	42	13	4	38	1.66
579622--579901	82	3.4	82	86	5	361	42	13	4	39	1.65
579883--579987	29	3.7	28	82	6	140	39	15	5	40	1.71
580539--580591	20	2.7	20	85	11	65	26	5	7	60	1.46
580821--580868	18	2.6	19	81	12	55	50	2	2	45	1.25
580875--580903	14	2.0	15	93	6	51	55	0	0	44	0.99
581697--581739	20	2.2	20	83	8	52	23	11	0	65	1.25
581740--581783	21	2.1	21	87	8	63	70	0	6	22	1.11
581947--582020	32	2.3	31	77	11	78	64	6	6	21	1.41
581960--582022	32	2.0	32	84	12	85	65	6	7	20	1.42
582024--582074	26	1.9	27	84	11	70	47	0	0	52	1.00
583833--584133	148	2.0	146	89	3	462	36	17	16	29	1.92
592862--593115	122	2.1	120	87	8	356	50	4	3	40	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603122--603169	20	2.4	20	96	0	87	4	20	8	66	1.35
620008--620070	31	2.0	31	81	6	74	38	4	4	52	1.44
620257--620394	21	6.7	21	71	6	77	37	25	16	20	1.93
620361--620552	20	9.6	20	78	7	194	36	25	18	19	1.94
620931--621001	33	2.2	33	92	0	115	11	22	18	47	1.80
621081--621190	21	5.8	20	74	17	108	45	18	24	11	1.83
621074--621190	41	3.1	38	81	14	145	46	17	25	11	1.81
621141--621197	14	3.7	14	75	20	60	43	22	24	8	1.81
621133--621213	33	2.5	33	95	0	144	46	22	22	8	1.78
621209--621306	19	5.7	19	70	22	90	10	23	22	43	1.83
621231--621320	14	5.7	14	72	23	72	8	24	23	43	1.82
621214--621328	33	3.5	33	97	0	221	9	23	20	46	1.80
623012--623477	93	5.1	93	97	2	879	22	12	19	45	1.83
623524--623622	19	5.4	19	77	12	91	45	26	18	10	1.80
623580--623636	14	3.7	14	77	20	60	45	24	21	8	1.80
623561--623652	33	2.8	33	96	1	168	46	22	20	9	1.80
623656--623743	33	2.7	33	92	3	142	7	18	27	46	1.76
623656--623764	19	6.3	19	73	20	112	7	17	27	47	1.74
623682--623781	19	5.4	19	76	18	95	9	17	28	46	1.78
623978--624006	13	2.2	13	100	0	58	34	6	10	48	1.64
626308--626332	12	2.1	12	100	0	50	0	28	0	72	0.86
626506--626551	23	2.0	23	86	4	65	39	21	13	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627244--627411	20	8.5	20	84	5	209	21	19	25	33	1.97
627244--627410	79	2.1	79	86	6	232	21	19	25	32	1.97
627226--627431	59	3.5	59	78	5	211	20	17	25	35	1.95
627263--627431	79	2.1	79	84	6	227	20	19	26	34	1.96
627693--627786	29	3.2	30	77	8	86	45	6	9	38	1.62
632803--633104	148	2.1	146	96	2	561	33	20	16	29	1.95
634573--634807	119	2.0	119	97	1	445	31	16	30	21	1.95
655645--655693	21	2.3	22	86	10	66	18	16	38	26	1.91
655841--655886	20	2.3	20	92	0	74	15	15	23	45	1.84
659462--659510	18	2.8	18	96	3	91	36	18	16	28	1.92

Tables:   1   2   3   4   5   6