genome.fa.s6094.2.7.7.80.10.50.1000.3.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: VEPZ01006094.1 Hibiscus syriacus cultivar Beakdansim tig00014445_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  761529

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 552 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)
336971--337026	17	3.0	17	85	15	67	10	23	48	17	1.79
336937--337023	22	4.0	22	98	0	165	9	21	49	19	1.76
337035--337109	29	2.5	30	87	8	109	29	26	26	17	1.97
337035--337109	9	7.8	9	80	11	69	29	26	26	17	1.97
344333--344412	10	8.1	10	76	9	67	30	26	25	18	1.98
344347--344411	29	2.2	30	89	8	98	29	26	27	16	1.97
344347--344411	19	3.3	19	73	16	53	29	26	27	16	1.97
346489--346529	18	2.3	18	91	0	64	53	26	2	17	1.56
346848--346903	20	2.8	20	86	0	76	23	19	21	35	1.96
346994--347043	25	2.0	25	92	0	82	28	8	22	42	1.81
347431--347464	17	1.9	17	88	5	50	38	5	8	47	1.59
347776--347862	39	2.2	39	93	0	147	47	20	13	18	1.83
348113--348161	20	2.5	20	100	0	98	16	14	26	42	1.86
349722--349817	21	4.6	21	71	8	79	22	17	34	25	1.96
349722--349821	42	2.4	42	81	6	121	23	17	35	25	1.95
349769--349824	21	2.7	21	73	15	62	26	14	32	26	1.95
349961--350010	4	12.5	4	82	0	64	68	2	2	28	1.12
351995--352041	20	2.4	20	92	3	78	10	14	23	51	1.74
352301--352366	22	3.0	22	88	6	98	24	12	37	25	1.90
352498--352546	20	2.5	20	89	0	80	20	18	20	40	1.91
352498--352554	20	2.8	20	77	15	64	19	17	21	42	1.90
352564--352618	20	2.8	20	75	10	67	29	14	27	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357047--357077	15	2.1	15	93	0	53	64	0	6	29	1.18
358455--358497	23	1.9	22	90	4	68	13	11	4	69	1.33
365084--365126	23	1.9	22	90	4	68	13	11	4	69	1.33
365852--366001	73	2.1	73	98	0	291	37	5	22	35	1.77
370851--370920	21	3.3	21	92	4	106	35	1	4	58	1.26
370866--370920	12	4.8	12	78	13	62	38	1	1	58	1.20
370836--370941	30	3.7	29	79	9	92	34	0	2	61	1.17
372370--372400	16	1.9	16	93	0	53	38	3	3	54	1.32
372738--372777	11	3.3	13	80	13	50	50	2	0	47	1.14
373205--373229	7	3.6	7	100	0	50	68	0	0	32	0.90
373252--373312	28	2.3	27	83	11	72	32	6	1	59	1.33
375578--375619	7	6.0	7	81	8	50	14	16	14	54	1.71
375578--375619	15	3.0	14	83	10	50	14	16	14	54	1.71
375679--375738	27	2.3	26	82	8	77	21	11	6	60	1.54
375691--375720	15	2.0	15	93	0	51	16	6	10	66	1.41
375677--375726	12	3.9	12	75	14	55	22	10	8	60	1.55
377614--377650	8	4.5	8	86	6	56	78	0	21	0	0.75
377613--377650	9	4.4	9	80	12	53	78	0	21	0	0.74
377613--377650	17	2.2	16	90	9	58	78	0	21	0	0.74
380764--380929	74	2.2	75	84	3	219	28	17	23	30	1.97
382284--382406	22	5.6	22	93	0	192	33	15	13	38	1.86
383077--383257	76	2.4	75	91	2	283	25	19	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383271--384043	113	6.8	113	86	3	869	37	14	19	29	1.91
383836--384163	122	2.7	123	88	2	468	38	14	19	27	1.90
384406--384475	21	3.3	21	92	4	106	35	1	4	58	1.26
384421--384475	12	4.8	12	78	13	62	38	1	1	58	1.20
384391--384496	30	3.7	29	79	9	92	34	0	2	61	1.17
385982--386012	16	1.9	16	93	0	53	38	3	3	54	1.32
386140--386374	130	1.8	130	80	5	287	40	9	7	42	1.66
386353--386392	11	3.3	13	80	13	50	50	2	0	47	1.14
387583--387855	138	2.0	137	81	3	325	41	17	11	30	1.85
391607--391670	20	3.0	20	72	12	65	34	14	18	32	1.91
393141--393180	21	1.9	21	84	0	53	32	22	2	42	1.67
393360--393467	23	4.8	23	81	2	112	32	24	25	17	1.97
394282--394320	20	2.0	20	84	0	51	20	30	12	35	1.90
394966--394998	16	2.1	16	100	0	66	54	15	12	18	1.71
395549--395597	19	2.5	20	86	3	64	48	6	14	30	1.67
402570--402608	17	2.3	17	100	0	78	12	23	46	17	1.83
402536--402580	7	6.4	7	100	0	90	26	28	28	15	1.96
402606--402660	19	2.9	19	83	0	65	29	29	25	16	1.97
402615--402693	9	8.1	10	77	12	67	30	26	25	17	1.97
402612--402692	19	4.2	19	77	12	76	29	27	27	16	1.97
409854--409896	7	6.4	7	84	10	63	23	27	32	16	1.96
409860--409923	12	5.3	12	83	11	78	15	25	42	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409881--409928	22	2.2	22	100	0	96	8	22	50	18	1.74
409925--410024	9	10.3	9	76	12	74	29	28	27	16	1.97
409950--410025	30	2.5	31	87	6	120	28	27	26	17	1.97
414662--414720	3	19.0	3	79	6	55	42	0	0	57	0.98
414656--414713	18	3.2	18	85	2	71	44	0	0	55	0.99
414664--414720	15	3.7	15	79	13	62	43	0	0	56	0.99
416005--416034	15	2.0	15	93	0	51	36	3	6	53	1.44
416486--416536	24	2.2	23	82	3	57	50	0	0	49	1.00
417065--417095	16	1.9	16	93	0	53	29	0	0	70	0.87
417033--417112	25	3.5	22	73	17	65	28	6	1	63	1.26
418594--418635	7	6.0	7	81	8	50	14	16	14	54	1.71
418594--418635	15	3.0	14	83	10	50	14	16	14	54	1.71
418695--418754	27	2.3	27	85	2	86	21	13	6	58	1.58
418694--418721	12	2.3	12	100	0	56	25	14	7	53	1.66
421909--421970	32	1.9	32	93	6	108	43	17	17	20	1.88
426171--426250	22	3.6	22	91	0	124	32	15	12	40	1.84
426945--426996	25	2.3	21	79	20	61	19	26	19	34	1.95
426952--427002	25	2.0	25	100	0	102	19	23	21	35	1.96
426907--427045	72	1.9	72	94	0	242	25	21	18	34	1.96
426977--427569	46	12.8	46	91	3	965	25	20	19	35	1.95
426977--427569	94	6.4	94	91	3	954	25	20	19	35	1.95
426977--427569	140	4.3	138	92	2	958	25	20	19	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427697--427785	3	29.0	3	86	4	124	37	0	0	62	0.95
427691--427792	18	5.5	18	88	3	114	39	0	0	60	0.97
429052--429081	15	2.0	15	93	0	51	36	3	6	53	1.44
429196--429258	12	5.3	11	73	16	54	33	3	1	61	1.21
430717--430771	20	2.8	20	91	0	92	32	23	18	25	1.97
430760--431037	96	2.9	95	83	6	348	31	17	14	36	1.90
433207--433244	20	1.9	20	94	0	67	36	15	21	26	1.93
433316--433378	22	2.9	22	85	0	99	53	15	11	19	1.71
435710--435734	2	12.5	2	100	0	50	48	0	52	0	1.00
439852--439926	39	1.9	39	100	0	150	26	20	18	34	1.95
441154--441192	2	19.5	2	100	0	78	51	0	0	48	1.00
443344--443399	3	18.7	3	96	0	103	64	0	1	33	1.04
443652--443682	2	15.5	2	100	0	62	51	0	0	48	1.00
448742--448956	59	3.7	58	85	3	279	31	21	10	36	1.88
450474--450503	14	2.1	15	93	6	53	80	13	0	6	0.91
452537--452692	53	2.9	53	95	0	267	30	18	19	31	1.96
459445--459474	14	2.1	15	93	6	53	80	13	0	6	0.91
463020--463048	14	2.1	14	93	6	51	58	0	27	13	1.36
465221--465278	19	3.1	18	73	11	53	55	6	15	22	1.64
470317--470661	80	4.2	80	79	8	340	32	16	18	32	1.93
470317--470665	161	2.2	162	84	6	440	33	16	18	32	1.92
474177--474224	24	1.9	26	87	8	73	41	10	20	27	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481816--481847	14	2.3	14	100	0	64	37	6	0	56	1.25
482703--482802	3	33.7	3	86	6	141	34	2	0	64	1.05
488496--488534	20	2.1	19	90	9	62	35	15	25	23	1.94
489285--489344	21	2.8	22	77	7	70	25	18	26	30	1.98
494670--494735	10	6.4	10	76	13	71	46	0	0	53	1.00
494672--494728	30	1.9	30	88	0	87	50	0	0	49	1.00
496016--496069	25	2.4	22	81	12	65	38	1	1	57	1.20
502246--502356	55	2.0	56	89	1	170	37	7	22	32	1.82
502442--502538	22	4.4	22	89	0	140	36	14	13	36	1.85
503115--503216	20	5.1	20	92	0	168	21	19	23	35	1.96

Tables:   1   2   3   4   5