genome.fa.s913.2.7.7.80.10.50.1000.2.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: VEPZ01000913.1 Hibiscus syriacus cultivar Beakdansim tig00001818_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1610646

Tables:   1   2   3   4   5   6   7   

This is table  2  of  7  ( 813 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)
214855--214904	20	2.6	19	84	15	68	34	18	24	24	1.96
215246--215284	16	2.4	16	100	0	78	66	15	5	12	1.41
220087--220128	18	2.3	18	100	0	84	16	23	11	47	1.80
221264--221305	3	14.0	3	100	0	84	33	0	0	66	0.92
223506--223576	30	2.4	28	81	13	81	42	1	1	54	1.17
223673--223731	10	5.7	10	70	21	50	50	0	0	49	1.00
225674--225723	7	6.2	8	77	13	50	80	0	2	18	0.82
225674--225714	15	2.6	16	84	3	57	80	0	2	17	0.82
225677--225726	4	12.5	4	76	16	50	78	0	2	20	0.86
225684--225726	13	3.5	13	78	9	54	76	0	2	20	0.89
225675--225728	24	2.3	22	81	12	63	77	0	1	20	0.86
225782--226188	35	11.4	35	78	5	359	42	11	3	42	1.59
225804--226193	109	3.7	109	80	4	393	42	11	3	42	1.60
226520--226557	18	2.1	18	100	0	76	23	10	34	31	1.89
234621--234682	24	2.6	24	79	5	63	20	24	19	35	1.96
239424--239788	35	10.4	35	75	6	265	41	13	3	41	1.60
239429--239771	69	4.9	70	79	6	286	41	13	3	41	1.60
239584--239826	109	2.3	107	83	2	315	43	10	3	42	1.55
249221--249253	2	16.5	2	93	0	57	48	48	0	3	1.17
261541--261612	30	2.4	30	86	4	92	20	25	12	41	1.87
276201--276234	2	17.0	2	100	0	68	50	0	0	50	1.00
276261--276381	52	2.3	52	80	4	129	22	6	29	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294726--294773	2	24.0	2	100	0	96	50	0	0	50	1.00
295322--295350	2	14.5	2	100	0	58	48	0	0	51	1.00
295376--295508	52	2.6	52	80	7	148	23	8	27	40	1.83
296857--296885	12	2.3	13	94	5	51	68	0	0	31	0.89
297034--297066	8	4.2	8	96	3	59	78	0	0	21	0.75
297028--297066	16	2.5	15	88	8	60	79	0	2	17	0.84
298494--298562	5	14.0	5	84	3	50	66	0	2	30	1.06
298494--298548	15	3.7	15	80	4	58	69	0	3	27	1.05
298519--298562	5	8.8	5	84	0	52	70	0	2	27	0.99
298642--298738	35	2.7	35	80	10	108	50	6	3	40	1.43
298657--298906	38	6.6	35	75	18	184	45	8	4	42	1.53
298642--298769	36	3.6	34	76	19	104	48	6	3	41	1.47
298637--298931	37	7.9	36	76	14	203	44	8	4	42	1.55
298675--298894	38	5.8	38	80	8	218	44	8	4	42	1.54
299764--300347	106	5.5	106	91	0	913	23	17	24	34	1.95
304169--304207	8	4.9	8	90	9	62	76	0	0	23	0.78
304163--304207	16	2.9	15	87	9	63	77	0	2	20	0.87
305632--305691	5	12.4	5	87	7	79	75	0	0	25	0.81
305751--306053	38	8.1	36	75	16	221	45	8	4	41	1.54
305751--306053	37	8.1	36	76	13	230	45	8	4	41	1.54
306451--306491	15	2.7	15	100	0	82	4	41	0	53	1.22
307271--307328	24	2.4	24	94	0	98	53	1	31	13	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308204--308228	2	12.5	2	100	0	50	0	48	0	52	1.00
312993--313053	29	2.1	30	84	3	79	36	18	4	40	1.72
324108--324317	65	3.3	63	78	11	221	26	19	24	29	1.98
325406--325433	3	9.3	3	100	0	56	32	0	67	0	0.91
332764--332819	19	3.0	19	79	12	62	28	17	26	26	1.98
332783--332826	18	2.5	18	96	3	81	27	18	22	31	1.97
346514--346538	10	2.5	10	100	0	50	80	0	8	12	0.92
354440--354651	4	51.2	4	74	12	153	25	1	5	67	1.21
354456--354514	27	2.2	27	87	0	82	27	0	1	71	0.96
354440--354651	23	9.9	21	72	14	132	25	1	5	67	1.21
354969--355022	3	18.0	3	100	0	108	33	0	0	66	0.92
360916--361035	60	2.0	60	86	3	170	33	17	5	44	1.71
360919--361070	60	2.5	60	79	4	162	33	21	5	40	1.75
361198--361336	60	2.3	60	82	4	156	39	5	20	35	1.74
367126--367171	14	3.3	14	77	19	51	67	4	23	4	1.27
368091--368310	30	7.4	29	74	13	173	19	12	8	60	1.57
368083--368282	60	3.4	59	80	6	217	19	11	8	61	1.55
368220--368262	14	3.2	13	78	12	50	18	11	6	62	1.50
368083--368359	58	4.7	59	75	10	201	19	12	9	58	1.60
368262--368325	29	2.2	29	91	5	103	17	15	14	53	1.74
370153--370196	12	3.3	14	82	17	58	13	20	13	52	1.74
371345--371517	90	1.9	89	94	1	301	39	10	6	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380041--380377	174	1.9	174	93	0	584	38	19	16	25	1.92
383329--383385	21	2.6	22	79	17	66	57	1	3	36	1.26
386407--386507	53	1.9	53	85	0	139	43	11	19	24	1.85
389135--389166	16	2.0	16	93	0	55	15	37	28	18	1.92
389452--389491	15	2.6	16	92	8	73	27	30	27	15	1.96
390936--391081	65	2.2	66	80	8	154	31	23	12	32	1.91
391139--391196	21	2.8	21	97	0	107	31	24	22	22	1.99
397272--397318	16	3.3	14	88	8	60	36	0	2	61	1.08
397271--397300	15	1.9	16	93	6	53	33	0	0	66	0.92
397309--397363	26	2.1	26	86	10	76	29	5	1	63	1.27
407971--408049	22	3.7	20	86	9	70	41	2	2	53	1.28
407996--408049	22	2.5	22	100	0	108	44	0	3	51	1.19
408306--408347	18	2.3	18	87	0	57	33	0	4	61	1.17
408794--408831	15	2.5	15	95	0	67	36	0	18	44	1.50
410593--410641	4	11.8	4	89	6	71	0	2	24	73	0.94
410871--410902	16	2.0	16	100	0	64	43	12	31	12	1.80
411741--411790	24	2.1	24	100	0	100	42	8	18	32	1.79
416698--416735	20	1.9	20	88	0	58	21	10	36	31	1.87
416718--416921	98	2.1	98	92	0	345	33	16	17	32	1.93
418469--418512	20	2.1	21	84	12	56	25	13	4	56	1.56
425417--425554	60	2.3	58	81	10	163	39	4	21	35	1.73
427609--427651	22	2.0	22	86	4	61	41	27	11	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433357--433461	17	6.1	17	75	8	79	39	9	15	36	1.80
433384--433427	18	2.5	18	85	10	56	43	11	9	36	1.72
433360--433462	52	2.0	52	82	3	127	39	9	14	35	1.79
434574--434631	21	3.1	19	81	18	68	18	25	1	53	1.54
436236--436324	17	5.2	17	77	17	85	39	7	13	39	1.74
436246--436305	17	3.5	17	93	0	93	40	6	16	36	1.75
436246--436312	34	2.0	34	87	0	98	38	7	14	38	1.75
448384--448440	25	2.4	24	82	5	71	26	7	24	42	1.80
449627--449662	18	1.9	19	88	5	56	36	5	22	36	1.78
454666--454718	27	2.0	27	88	3	81	20	3	37	37	1.71
454904--454938	15	2.3	15	90	0	52	5	0	28	65	1.15
457643--457740	35	2.7	35	93	3	160	37	6	3	53	1.42
459368--459445	41	1.9	41	91	0	129	39	19	6	34	1.77
459993--460039	2	24.0	2	95	4	87	51	0	0	48	1.00
466706--466751	18	2.6	18	89	3	76	17	45	21	15	1.85
466754--466906	29	5.3	29	74	4	112	31	6	23	38	1.80
466783--466935	29	5.4	28	75	6	119	33	5	20	39	1.77
473994--474030	11	3.6	11	89	10	53	18	21	27	32	1.97
474039--474078	21	1.9	21	100	0	80	15	45	25	15	1.84
474033--474065	13	2.5	13	100	0	66	15	45	24	15	1.84
474139--474247	29	3.7	29	81	6	94	36	4	19	39	1.72
474181--474247	29	2.3	29	92	0	107	29	4	22	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476490--476526	17	2.2	18	90	9	60	21	5	5	67	1.31
476490--476558	16	4.2	17	75	14	65	21	7	2	68	1.28
484397--484461	25	2.6	25	100	0	130	56	0	36	6	1.24
496160--496202	11	3.8	11	96	3	77	44	0	0	55	0.99
496198--496267	3	22.7	3	91	5	113	62	0	4	32	1.14
496587--497140	113	4.9	113	96	2	1008	27	19	15	37	1.92
496587--497144	225	2.5	225	95	1	1014	27	19	15	37	1.92
497946--498191	83	3.0	83	97	1	458	36	22	12	28	1.90
498021--498379	188	1.9	188	96	1	666	35	22	12	29	1.91
498104--498296	105	1.8	105	94	2	343	34	22	11	30	1.90

Tables:   1   2   3   4   5   6   7