genome.fa.s9397.2.7.7.80.10.50.1000.3.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: VEPZ01009397.1 Hibiscus syriacus cultivar Beakdansim tig00113302_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  510949

Tables:   1   2   3   4   

This is table  3  of  4  ( 367 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)
369827--369921	20	4.7	20	80	2	91	34	24	17	23	1.96
370109--370152	22	2.0	22	95	0	79	20	45	15	18	1.85
370415--370452	20	1.9	20	88	0	58	13	15	21	50	1.78
370581--370642	25	2.4	28	70	22	64	20	6	16	56	1.62
371765--371809	18	2.5	18	85	0	63	26	42	15	15	1.87
372281--372347	20	3.4	20	81	2	73	38	23	22	14	1.92
372336--372393	14	3.9	14	79	16	71	48	25	17	8	1.75
372320--372398	32	2.4	33	95	2	142	46	24	18	10	1.80
372405--372573	19	9.8	18	72	18	128	12	20	23	43	1.85
372427--372516	14	5.9	14	73	19	81	10	17	24	47	1.78
372410--372532	32	3.8	33	94	2	214	11	18	22	47	1.81
372517--372571	20	2.8	19	89	5	83	16	25	23	34	1.95
374440--374475	14	2.6	14	90	0	54	30	0	22	47	1.52
374592--374651	19	3.5	17	89	10	63	48	16	21	13	1.80
374592--374640	19	2.6	19	100	0	98	48	16	20	14	1.80
374678--374734	20	2.8	20	94	0	96	21	22	17	38	1.93
375100--375135	14	2.6	14	90	0	54	30	0	22	47	1.52
375690--375725	14	2.6	14	90	0	54	30	0	22	47	1.52
376279--376314	14	2.6	14	90	0	54	30	0	22	47	1.52
376435--376473	19	2.0	20	90	5	62	12	23	20	43	1.86
376865--376900	14	2.6	14	90	0	54	30	0	22	47	1.52
377453--377488	14	2.6	14	90	0	54	30	0	22	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374698--378453	588	6.4	590	98	0	7307	31	12	19	36	1.88
379325--379377	24	2.2	24	86	0	70	26	16	18	37	1.93
379552--379576	12	2.1	12	100	0	50	72	0	28	0	0.86
381867--381931	19	3.7	19	70	19	68	43	20	24	12	1.86
381867--381929	33	1.9	33	96	0	117	41	20	25	12	1.88
381931--382002	19	4.1	18	73	20	71	13	20	19	45	1.84
382108--382144	14	2.6	14	86	0	56	45	24	2	27	1.66
383502--383568	21	3.2	21	68	4	55	19	20	35	23	1.95
383502--383624	42	2.9	41	80	7	113	22	17	36	22	1.95
385645--385743	33	3.0	33	86	1	135	39	19	26	15	1.91
385719--385784	19	3.5	19	97	0	123	45	21	22	10	1.82
385780--385846	19	3.5	19	83	2	80	10	16	23	49	1.77
386403--386482	21	3.9	21	75	6	65	18	18	20	42	1.89
386366--386459	20	4.7	20	80	2	89	23	18	24	34	1.96
386387--386521	41	3.3	41	81	4	130	20	20	20	38	1.94
386448--386540	21	4.6	20	79	4	105	18	23	18	39	1.92
386448--386543	41	2.3	41	96	0	174	18	22	17	40	1.91
387403--387482	3	26.7	3	100	0	160	66	0	0	33	0.92
393860--393950	46	2.0	46	95	0	164	32	9	9	47	1.70
394318--394356	20	2.0	20	89	0	60	28	5	2	64	1.28
394319--394364	20	2.3	20	84	0	56	26	8	2	63	1.35
399112--399136	6	4.2	6	100	0	50	0	16	52	32	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400075--400133	29	2.0	29	100	0	118	23	13	13	49	1.78
404754--404812	29	2.0	29	100	0	118	23	13	13	49	1.78
412766--412854	29	3.1	29	93	3	153	30	22	20	26	1.98
417032--417059	14	2.0	14	100	0	56	21	14	14	50	1.78
417313--417393	34	2.4	34	76	12	85	13	14	20	50	1.77
417326--417377	24	2.2	24	82	0	59	11	15	25	48	1.78
417338--417397	24	2.5	24	94	0	102	10	11	21	56	1.64
417338--417387	10	4.6	10	79	18	55	8	12	24	56	1.62
417347--417397	14	3.9	14	73	19	56	9	11	21	56	1.63
418468--418522	16	3.7	15	76	18	62	7	12	23	56	1.61
418488--418512	6	4.2	6	100	0	50	0	16	32	52	1.44
418884--418914	14	2.2	14	94	0	53	9	12	19	58	1.62
434158--434209	2	26.0	2	100	0	104	50	0	0	50	1.00
439428--439472	17	2.5	19	77	22	53	60	0	4	35	1.17
441610--441679	36	1.9	36	91	0	113	25	27	22	24	2.00
442942--443004	31	1.9	33	87	9	94	36	4	4	53	1.43
448249--448308	29	2.0	30	90	6	95	33	6	18	41	1.76
448393--448435	20	2.2	20	86	0	59	23	37	25	13	1.92
448469--448511	21	2.0	21	100	0	86	13	44	27	13	1.83
448547--448589	21	2.0	21	95	0	77	23	20	27	27	1.99
449374--449666	145	2.0	147	97	2	563	34	15	25	24	1.95
449927--449974	19	2.5	20	82	3	62	52	6	12	29	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451079--451138	29	2.0	30	90	6	95	33	6	18	41	1.76
451254--451283	15	2.0	15	100	0	60	26	33	26	13	1.93
451227--451305	21	4.0	21	76	18	89	24	36	26	12	1.91
451343--451380	20	1.9	20	100	0	76	13	44	26	15	1.83
451415--451457	21	2.0	21	95	0	77	23	20	27	27	1.99
451484--451523	20	1.9	22	90	10	66	37	40	10	12	1.77
451734--451803	34	2.1	32	89	5	104	31	15	31	21	1.95
452126--452166	22	1.9	21	85	5	55	36	4	2	56	1.34
452234--452270	19	2.1	17	90	10	56	27	8	0	64	1.21
452491--452525	18	2.0	18	88	5	54	5	20	2	71	1.19
454161--454342	94	1.9	94	92	0	301	39	5	30	25	1.78
454432--454460	3	9.7	3	100	0	58	0	34	0	65	0.93
456592--456623	16	2.0	16	93	0	55	28	0	25	46	1.53
457382--457448	31	2.2	31	94	0	116	41	14	5	37	1.71
459455--459541	43	2.0	44	95	2	158	29	25	18	26	1.98
460691--460765	32	2.2	32	83	11	87	49	1	0	49	1.09
460685--460752	17	3.8	17	73	15	57	51	2	0	45	1.16
460741--460783	21	2.0	21	86	8	61	51	0	0	48	1.00
461942--461985	2	22.0	2	100	0	88	50	0	0	50	1.00
461998--462298	33	8.8	33	75	17	192	44	4	7	43	1.53
462113--462403	33	8.2	36	78	12	241	43	3	7	45	1.48
462110--462298	70	2.6	73	84	12	250	44	2	7	45	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462463--462505	3	14.0	3	85	4	59	30	2	0	67	1.03
462470--462531	22	2.9	22	77	18	60	22	4	0	72	1.03
463601--463656	23	2.5	22	81	13	69	25	1	3	69	1.14
463606--463653	20	2.4	20	80	16	55	25	2	4	68	1.18
465385--465431	22	2.1	22	88	0	67	19	14	27	38	1.91
466017--466052	5	7.2	5	100	0	72	0	38	19	41	1.52
466143--466249	20	5.1	21	71	8	67	39	25	18	16	1.92
469283--469614	135	2.5	129	83	5	412	23	32	11	32	1.90
470690--470737	25	2.0	24	91	4	78	25	14	12	47	1.79
471068--471128	4	15.8	4	77	6	63	0	19	49	31	1.49
471067--471130	12	5.2	12	77	7	74	0	18	48	32	1.49
471088--471130	22	2.0	22	86	9	61	0	18	48	32	1.48
473604--473706	10	10.6	9	79	15	98	14	28	29	28	1.95
473604--473706	20	5.2	20	89	8	126	14	28	29	28	1.95
473722--473764	22	2.0	22	95	0	77	18	46	23	11	1.82
473710--473752	17	2.5	17	100	0	86	18	48	23	9	1.76
480979--481018	19	2.1	19	95	0	71	17	22	32	27	1.96
481086--481116	7	4.4	7	100	0	62	16	29	29	25	1.96
487498--487534	17	2.3	15	86	13	56	37	5	0	56	1.22
487495--487552	21	2.5	24	76	15	61	36	5	1	56	1.32
487495--487560	26	2.5	27	80	5	80	37	6	1	54	1.34
490709--490955	129	1.9	130	91	0	406	35	14	13	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490723--490986	129	2.0	129	80	5	291	38	12	13	34	1.83
491566--491609	21	2.1	21	100	0	88	40	0	13	45	1.44
492525--492995	179	2.6	181	89	1	703	42	13	17	26	1.87
492916--492962	20	2.4	19	82	10	67	53	10	17	19	1.72
492927--492967	20	2.2	19	83	12	50	51	14	17	17	1.77
493705--494476	183	4.2	183	96	0	1386	35	14	16	33	1.90
494350--494596	120	2.1	120	92	1	415	32	13	15	37	1.87
494167--494761	303	2.0	303	96	0	1102	34	14	16	34	1.89
498093--498255	87	1.9	87	94	0	290	33	14	10	41	1.80
498177--498221	23	2.0	23	86	0	63	37	15	8	37	1.79

Tables:   1   2   3   4