genome.fa.s8954.2.7.7.80.10.50.1000.2.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: VEPZ01008954.1 Hibiscus syriacus cultivar Beakdansim tig00112282_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  488355

Tables:   1   2   3   

This is table  2  of  3  ( 325 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)
249121--249162	21	2.0	21	85	0	57	23	21	9	45	1.81
253774--253818	21	2.1	21	84	8	56	57	0	6	35	1.25
254850--254922	28	2.6	28	71	18	69	24	2	1	71	1.07
254910--254937	11	2.5	11	100	0	56	14	0	0	85	0.59
254927--254961	17	2.2	17	90	10	56	31	0	0	68	0.90
256257--256290	2	17.0	2	100	0	68	50	0	0	50	1.00
256309--256591	151	1.9	150	88	2	433	29	15	8	45	1.76
256903--256968	4	15.5	4	75	12	60	24	4	3	68	1.23
258059--258116	2	29.0	2	100	0	116	50	0	0	50	1.00
258933--258975	19	2.3	19	87	0	59	9	27	25	37	1.87
261071--261124	27	2.0	28	85	3	74	12	25	20	40	1.88
267749--267855	44	2.4	45	85	3	130	31	22	15	29	1.95
267764--267862	44	2.3	44	85	1	146	29	25	16	29	1.96
274383--274413	14	2.2	14	100	0	62	48	0	0	51	1.00
274330--274436	57	1.9	56	84	9	146	49	0	1	47	1.18
274825--274879	12	4.6	12	83	0	74	12	16	47	23	1.81
274980--275016	12	3.0	12	92	4	56	10	16	54	18	1.71
276506--276582	31	2.5	31	86	0	100	46	11	12	28	1.77
284038--284069	13	2.5	13	94	0	55	37	37	0	25	1.56
286881--286917	17	2.2	17	100	0	74	5	51	5	37	1.48
292294--292367	37	2.0	36	84	7	96	48	4	0	47	1.20
293335--293375	18	2.3	18	91	4	66	63	2	4	29	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
293619--293748	51	2.5	51	76	16	135	28	27	28	15	1.96
299585--300245	182	3.6	181	87	2	912	43	14	15	26	1.85
302201--302256	24	2.4	23	80	8	69	42	0	7	50	1.30
304505--304553	19	2.6	19	96	0	89	32	2	10	55	1.45
304994--306351	200	6.8	199	90	3	2042	37	14	17	30	1.90
304994--306318	589	2.2	588	89	3	1985	37	14	17	30	1.90
308960--308984	11	2.3	11	100	0	50	36	8	8	48	1.62
310584--311771	198	6.0	198	90	1	1738	39	14	14	30	1.86
310584--311769	393	3.0	393	89	2	1784	39	14	14	30	1.86
313397--313444	19	2.5	19	86	6	62	31	6	8	54	1.55
315925--316368	200	2.2	199	85	4	592	38	15	16	29	1.90
316635--316754	64	1.9	64	98	0	231	30	12	13	43	1.81
331841--331916	38	2.0	37	82	7	91	50	3	0	46	1.20
339327--339367	22	1.9	21	90	5	64	17	7	0	75	1.02
339324--339381	25	2.3	25	82	5	64	15	5	3	75	1.11
339431--339456	2	13.0	2	100	0	52	50	0	0	50	1.00
339553--339591	17	2.2	18	86	13	55	20	7	2	69	1.26
339601--339640	15	2.7	15	84	0	53	15	12	0	72	1.12
339588--339674	34	2.5	34	81	9	97	17	9	4	68	1.33
346228--346351	65	1.9	66	91	1	205	37	22	18	21	1.95
346483--346575	32	2.8	35	72	11	104	35	23	16	24	1.95
346479--346771	120	2.4	120	91	1	462	32	23	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347964--348002	13	3.1	14	82	17	50	20	5	0	74	1.01
348124--348171	15	3.2	15	77	11	53	25	4	0	70	1.04
348217--348255	17	2.2	18	86	13	55	20	10	2	66	1.33
348247--348288	10	4.0	10	85	14	50	21	9	0	69	1.17
348265--348304	15	2.7	15	92	0	62	17	10	0	72	1.11
351937--352038	17	5.9	17	73	11	73	39	9	14	36	1.80
351937--352038	34	2.9	35	77	8	102	39	9	14	36	1.80
359103--359137	2	17.5	2	100	0	70	51	0	0	48	1.00
359351--359488	24	5.8	24	86	6	165	41	18	15	25	1.89
359385--359506	48	2.5	48	84	5	131	42	18	15	23	1.88
362420--362467	20	2.4	20	96	0	87	37	25	25	12	1.91
367148--367197	22	2.2	23	89	3	84	52	12	12	24	1.72
367618--367668	22	2.3	22	82	0	66	21	19	15	43	1.88
371935--371972	20	1.9	20	88	0	58	13	26	34	26	1.93
375418--375457	21	1.9	21	90	10	64	37	10	0	52	1.35
378321--378392	32	2.3	31	80	4	92	56	1	8	33	1.38
378515--378567	20	2.6	20	77	16	56	60	0	3	35	1.15
379754--379781	13	2.2	13	100	0	56	25	7	39	28	1.82
381102--381307	44	4.7	43	84	10	247	22	3	6	67	1.29
384933--384987	20	2.7	20	81	10	67	29	9	20	41	1.82
384985--385072	23	3.9	23	77	5	90	25	17	26	31	1.97
384912--385045	21	6.3	21	74	10	85	25	13	24	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384980--385070	44	2.1	44	85	0	119	26	17	25	30	1.97
387968--388018	22	2.3	23	82	3	59	15	23	27	33	1.95
389344--389438	21	4.5	21	76	5	84	41	18	14	25	1.89
392249--392381	21	6.3	21	73	7	90	37	22	15	24	1.93
392299--392379	42	2.0	41	85	2	108	38	19	14	27	1.91
395986--396020	16	2.1	17	89	5	54	74	11	0	14	1.08
395982--396075	24	3.9	23	71	19	68	69	8	1	21	1.22
396085--396161	24	3.4	24	70	18	83	67	2	5	24	1.24
396086--396195	21	5.1	21	68	16	82	67	3	5	23	1.28
396001--396202	43	4.7	42	83	13	234	67	5	3	22	1.28
399150--399232	32	2.7	30	77	7	85	33	7	0	59	1.25
406046--406093	16	3.0	16	81	0	51	54	25	8	12	1.65
414130--414160	16	1.9	16	93	0	53	22	22	12	41	1.88
414348--414391	22	1.9	24	90	9	74	59	2	0	38	1.10
414421--414467	14	3.7	14	71	26	50	44	0	4	51	1.21
414420--414469	23	2.1	24	96	3	93	48	0	4	48	1.20
414941--414993	12	5.1	12	67	32	50	24	33	0	41	1.55
414941--415005	20	3.3	20	97	2	123	23	36	0	40	1.55
414992--415044	27	1.9	27	84	3	70	30	30	0	39	1.57
415681--415723	19	2.4	18	84	7	52	44	2	30	23	1.66
415691--415731	19	2.1	20	95	4	75	43	0	31	24	1.54
415695--415746	19	2.7	20	85	5	63	51	0	21	26	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415656--415745	46	2.0	46	86	4	128	47	1	25	25	1.59
415965--416076	21	5.4	19	74	16	66	50	24	0	25	1.49
415966--416074	28	3.9	27	83	9	130	51	22	0	25	1.48
415966--416080	7	16.4	7	74	0	50	50	24	0	25	1.50
416070--416147	18	4.2	20	87	6	76	50	7	2	39	1.45
416095--416157	2	30.5	2	90	6	99	50	1	1	46	1.20
416273--416411	2	69.0	2	78	12	142	47	2	2	47	1.29
416348--416422	6	12.5	6	95	0	51	52	0	0	48	1.00
416448--416479	15	2.1	15	94	0	55	46	3	6	43	1.44
416498--416652	18	8.2	18	73	19	111	43	2	5	47	1.41
416466--416648	98	1.9	98	95	0	330	44	3	6	45	1.46
416596--416673	36	2.1	38	86	9	108	44	0	3	51	1.19
416625--416681	30	1.9	30	85	7	80	43	0	1	54	1.10
416588--416681	13	7.2	13	69	23	56	44	0	3	52	1.17
417013--417039	12	2.2	12	100	0	54	29	7	7	55	1.55
417349--417488	64	2.2	64	85	5	194	28	25	18	27	1.98
419520--419559	7	5.7	7	81	0	53	40	40	0	20	1.52
419471--419690	110	2.0	110	87	1	316	44	22	7	25	1.78
419628--419668	14	2.9	14	85	0	55	46	46	0	7	1.30
419628--419668	21	2.0	21	85	9	57	46	46	0	7	1.30
421087--421145	23	2.6	23	88	0	82	38	18	16	25	1.92
421133--421261	24	5.7	24	83	12	173	22	27	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
421147--421192	17	2.7	18	90	10	78	21	28	23	26	1.99
422430--422468	15	2.6	16	84	12	55	15	0	0	84	0.62
424105--424191	8	10.6	8	71	18	63	80	1	4	13	0.92
424114--424207	15	5.8	16	76	10	93	79	1	5	13	0.95
424142--424191	14	3.8	13	78	19	50	80	2	2	16	0.91
424114--424207	32	3.0	29	81	15	109	79	1	5	13	0.95
424139--424191	13	4.1	13	81	15	65	81	1	1	15	0.87
424106--424207	45	2.3	45	80	12	113	80	0	5	12	0.94
424927--424996	25	2.7	27	75	18	69	1	7	34	57	1.35
425466--425490	6	4.2	6	100	0	50	84	0	0	16	0.63

Tables:   1   2   3