genome.fa.s8258.2.7.7.80.10.50.1000.3.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: VEPZ01008258.1 Hibiscus syriacus cultivar Beakdansim tig00110911_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1617810

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 931 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)
318886--319021	46	3.0	45	78	15	115	51	3	5	39	1.42
319196--319241	23	1.9	25	82	8	60	54	0	6	39	1.26
319247--319425	22	8.1	22	75	14	127	51	3	8	35	1.50
319417--319456	20	2.1	19	90	4	62	32	7	2	57	1.40
319465--319603	20	7.0	19	69	24	74	49	5	2	43	1.36
319547--319605	22	2.7	22	80	12	61	49	6	1	42	1.39
319633--319673	11	3.9	11	78	12	50	41	4	7	46	1.53
319632--319821	20	9.2	20	70	18	95	46	5	4	42	1.48
319677--319749	13	5.3	13	79	9	65	53	5	1	39	1.33
319659--319764	43	2.4	43	88	1	149	49	4	3	42	1.42
319701--319821	52	2.4	49	74	10	118	48	5	4	41	1.46
319714--319789	31	2.5	31	87	6	102	47	3	5	43	1.44
319648--319762	2	57.0	2	66	20	53	48	4	3	43	1.39
319757--319808	21	2.6	21	85	8	65	44	7	5	42	1.57
321798--322185	192	2.0	194	95	4	703	21	17	25	35	1.95
323716--323763	21	2.5	19	80	19	55	33	4	6	56	1.44
326641--326683	22	2.0	22	86	8	63	46	2	4	46	1.36
334758--334843	3	28.7	3	100	0	172	66	0	0	33	0.92
336197--336338	65	2.2	65	77	15	150	26	17	22	33	1.96
352304--352411	6	18.0	6	98	0	207	49	33	0	16	1.53
366932--367038	41	2.6	40	83	2	115	25	24	20	29	1.99
371492--371537	5	9.0	5	83	4	56	21	4	2	71	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390302--390333	16	2.0	16	93	0	55	9	12	21	56	1.64
393382--393537	85	1.8	85	88	2	242	30	1	12	56	1.44
399574--399617	21	2.1	21	86	0	61	34	20	22	22	1.97
403881--403915	15	2.4	15	90	4	54	17	5	2	74	1.14
418028--418072	6	7.5	6	100	0	90	51	0	33	15	1.44
419019--419079	27	2.3	27	94	0	113	63	0	0	36	0.94
419029--419079	9	5.7	9	78	0	57	66	0	0	33	0.92
419131--419179	22	2.2	22	88	0	71	46	40	4	8	1.52
426311--426346	17	2.1	17	100	0	72	27	5	11	55	1.57
427942--427988	19	2.4	19	89	10	69	82	0	17	0	0.66
427942--427980	6	6.3	6	83	16	53	84	0	15	0	0.62
427941--427984	15	2.9	15	83	10	54	81	0	18	0	0.68
437732--437773	21	2.0	22	85	4	59	23	14	0	61	1.32
441236--441298	24	2.5	25	84	7	74	77	1	12	7	1.05
441241--441302	8	7.4	8	74	16	54	75	1	12	9	1.11
441236--441302	27	2.6	25	86	6	82	76	1	13	8	1.09
442177--442975	240	3.3	239	86	4	978	38	16	20	25	1.93
442764--442860	40	2.6	37	85	9	126	47	12	20	19	1.81
443104--443178	3	25.3	3	94	2	134	34	0	0	65	0.93
452252--452318	27	2.5	26	80	4	73	20	16	1	61	1.42
462429--462468	21	1.9	21	89	0	62	40	5	17	37	1.72
474559--474618	24	2.5	24	80	0	75	35	15	25	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475757--475791	18	1.9	18	88	0	52	28	17	0	54	1.43
480729--480759	16	1.9	16	100	0	62	32	16	25	25	1.96
486336--486475	51	2.8	51	79	7	153	18	28	27	25	1.98
486562--486589	10	2.8	10	100	0	56	25	32	0	42	1.55
488860--488940	29	2.8	29	96	1	144	40	12	14	32	1.83
491588--491633	16	3.0	16	79	17	53	41	2	0	56	1.11
492596--492642	12	3.8	12	88	11	69	40	2	0	57	1.11
493942--493976	18	2.1	17	89	10	54	22	42	0	34	1.54
495787--495850	23	2.8	24	83	9	80	25	23	29	21	1.99
495769--495850	23	3.7	22	76	9	69	21	23	30	24	1.99
504624--504654	9	3.6	9	91	8	55	45	0	0	54	0.99
505059--505118	21	2.9	21	71	0	66	23	36	26	13	1.92
506929--506996	20	3.4	20	86	8	93	39	17	22	20	1.92
507174--507239	22	3.0	22	88	0	96	22	39	15	22	1.91
507576--507665	20	4.6	20	81	1	83	14	17	22	45	1.85
507630--507674	20	2.2	20	80	0	54	17	13	17	51	1.77
509554--509732	20	9.6	20	75	16	143	42	19	17	20	1.89
509775--509862	20	4.4	20	86	1	124	20	19	22	37	1.94
509797--509873	39	2.0	40	86	2	111	19	16	20	42	1.89
510341--510433	41	2.2	41	83	5	107	20	37	17	24	1.93
511980--512033	14	3.5	14	73	22	54	44	20	24	11	1.83
511960--512055	33	2.8	33	92	3	147	42	20	23	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511993--512060	20	3.8	19	72	21	74	47	19	22	11	1.81
512092--512146	14	3.6	14	73	21	56	10	23	20	45	1.82
512070--512164	33	2.8	33	98	1	181	12	23	18	45	1.84
512158--512230	20	3.7	20	87	5	112	20	20	24	34	1.97
514644--514693	24	2.1	24	92	0	82	38	20	20	22	1.94
515543--515605	20	3.2	20	93	0	99	23	17	26	31	1.97
515592--515724	20	6.7	20	91	0	212	19	18	20	42	1.90
515721--515766	21	2.2	21	92	0	74	39	17	26	17	1.91
515742--515829	40	2.2	40	80	10	99	29	18	27	25	1.98
517858--518045	65	2.9	65	82	7	190	32	17	21	29	1.96
517858--518017	65	2.5	64	84	7	191	31	17	21	30	1.96
520527--520623	45	2.2	45	85	10	130	27	20	22	28	1.99
520527--520623	21	4.4	22	71	20	71	27	20	22	28	1.99
526372--526495	65	1.9	64	81	14	148	30	16	21	30	1.96
534920--534979	20	2.8	22	73	12	63	26	21	18	33	1.96
534843--535203	191	1.9	192	86	3	525	34	15	15	34	1.89
535405--535822	37	11.0	37	73	9	218	36	20	18	24	1.95
535476--535683	79	2.6	79	88	2	312	31	22	18	26	1.97
535634--535817	74	2.5	74	88	0	260	39	20	16	23	1.92
542182--542287	53	2.0	53	100	0	212	18	16	26	37	1.93
542532--542926	198	2.0	199	99	0	783	33	15	11	38	1.84
546564--546608	15	2.9	16	90	6	67	24	0	15	60	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548355--548833	238	2.0	236	97	2	899	42	21	12	23	1.87
552882--552912	16	1.9	16	100	0	62	48	25	0	25	1.52
557766--557794	13	2.2	13	100	0	58	37	24	17	20	1.93
569465--569536	30	2.4	29	81	9	81	40	6	11	41	1.67
570201--570252	18	2.9	18	88	0	68	23	28	19	28	1.98
573684--574282	299	2.0	300	98	0	1166	35	23	5	35	1.79
574522--574557	2	18.5	2	94	5	65	52	0	0	47	1.00
574364--574703	182	1.9	182	94	1	603	42	18	7	30	1.78
575348--575383	15	2.4	15	95	0	63	41	13	0	44	1.44
575542--575584	20	2.2	19	84	12	52	25	16	27	30	1.97
578322--578607	41	7.0	41	80	5	274	26	18	17	37	1.93
578322--578607	123	2.3	123	83	5	339	26	18	17	37	1.93
578322--578607	83	3.5	82	82	5	285	26	18	17	37	1.93
583667--583720	22	2.5	22	87	0	90	22	25	29	22	1.99
583648--583726	10	7.4	11	68	19	51	22	25	27	24	2.00
585978--586089	24	5.0	24	77	14	130	25	16	19	39	1.91
585994--586030	17	2.2	17	100	0	74	24	16	24	35	1.95
590496--590614	24	5.0	24	89	4	168	26	13	20	40	1.89
599423--599458	18	2.0	18	94	0	63	38	5	2	52	1.39
600821--600923	40	2.6	40	92	0	179	24	20	10	44	1.83
604613--604968	68	5.2	68	91	0	588	31	15	25	27	1.96
604957--605596	81	7.9	81	87	0	877	37	12	21	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605763--605787	2	12.5	2	100	0	50	0	0	48	52	1.00
606991--607160	91	1.9	91	88	2	261	44	8	2	44	1.49
607110--607270	80	2.0	79	85	1	214	45	4	6	42	1.50
607302--607361	9	6.8	9	81	11	79	51	0	1	46	1.10
607289--607342	28	1.9	28	92	0	90	46	1	1	50	1.23
607306--607358	16	3.1	17	86	10	72	50	0	1	47	1.12
612531--612853	82	3.9	82	78	7	235	30	13	22	33	1.93
612535--612822	83	3.5	83	81	5	307	30	13	23	32	1.93
612589--612710	41	3.0	40	70	9	111	27	12	24	36	1.91
612725--612824	41	2.5	40	79	8	112	30	12	23	35	1.91

Tables:   1   2   3   4   5   6   7   8