genome.fa.s1095.2.7.7.80.10.50.1000.3.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: VEPZ01001095.1 Hibiscus syriacus cultivar Beakdansim tig00002169_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  842675

Tables:   1   2   3   4   

This is table  3  of  4  ( 410 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)
492755--492920	45	3.8	45	78	14	168	37	10	16	34	1.83
492743--492949	44	4.7	44	76	12	181	37	10	17	33	1.85
499503--499544	20	2.1	20	82	8	50	38	2	2	57	1.25
502713--502758	24	1.9	24	95	0	83	45	8	15	30	1.76
503123--503168	24	1.9	24	86	0	65	52	17	8	21	1.71
504699--504729	2	15.5	2	100	0	62	48	0	0	51	1.00
514906--514953	22	2.2	22	81	7	53	29	12	6	52	1.63
522269--522443	90	1.9	90	89	0	269	38	9	8	44	1.66
529057--529231	90	2.0	89	94	1	305	37	10	6	45	1.65
541089--541146	23	2.5	23	97	0	107	41	3	15	39	1.64
551397--551433	6	6.2	6	90	0	56	48	10	21	18	1.78
553869--554267	79	5.1	79	91	1	615	35	11	24	28	1.90
560682--561078	79	5.0	79	88	1	555	37	10	22	30	1.87
571637--571744	37	2.9	37	80	5	137	37	21	17	24	1.94
571752--572164	216	1.9	216	87	2	614	34	14	20	30	1.92
572230--572296	22	3.1	21	72	8	64	25	17	22	34	1.96
572230--572321	42	2.2	42	80	3	105	25	16	21	36	1.94
572118--572708	135	4.4	135	86	3	778	30	16	21	31	1.96
572496--572581	42	2.0	42	84	4	111	27	13	22	36	1.92
572118--572699	271	2.2	270	87	3	823	30	16	21	31	1.96
572630--573103	42	10.9	42	70	13	264	29	17	20	32	1.96
572495--573053	177	3.2	176	89	1	823	29	17	21	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572793--572817	13	1.9	13	100	0	50	32	24	20	24	1.98
572813--572929	22	5.5	21	70	19	91	27	15	21	35	1.93
572812--572915	20	5.0	20	70	21	88	25	15	24	34	1.94
577151--577182	15	2.1	15	94	0	55	46	6	9	37	1.61
583961--584001	7	6.0	7	88	5	66	14	17	26	41	1.88
585447--585570	31	3.8	31	73	15	108	33	21	23	20	1.97
586787--586855	36	1.9	36	90	0	111	23	27	20	28	1.99
590082--590463	204	1.9	205	91	3	635	43	10	11	34	1.75
596000--596060	28	2.2	28	90	0	95	22	6	27	42	1.78
596079--596428	77	4.6	77	86	2	429	28	8	18	44	1.78
596079--596428	153	2.3	153	83	3	429	28	8	18	44	1.78
596481--596536	20	2.8	19	71	12	51	28	19	10	41	1.85
610109--610165	28	2.0	28	89	0	87	26	5	26	42	1.76
610113--610174	28	2.2	28	82	5	72	27	3	24	45	1.68
614029--614085	24	2.4	24	96	0	105	15	21	38	24	1.92
626071--626108	20	1.9	20	94	0	67	31	18	26	23	1.97
626091--626118	13	2.2	13	100	0	56	35	21	28	14	1.92
628096--628234	69	2.0	69	100	0	278	27	11	26	34	1.91
629345--629379	18	1.9	18	88	11	54	45	11	5	37	1.64
630996--631035	13	2.9	14	85	7	64	40	25	20	15	1.90
631840--631987	77	1.9	78	83	4	192	32	8	19	39	1.81
633298--633339	19	2.2	19	95	0	75	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633336--637199	877	4.4	875	85	3	5086	38	14	9	37	1.79
639986--640070	32	2.7	31	87	5	116	24	28	27	20	1.99
641068--641128	27	2.2	28	85	5	81	22	11	19	45	1.82
641519--641573	26	2.2	25	83	3	65	20	12	23	43	1.86
650257--651032	113	6.9	113	93	1	1274	27	19	15	37	1.92
652171--652248	19	3.9	19	80	13	79	55	5	10	29	1.55
652577--652615	10	3.5	11	83	16	53	2	12	0	84	0.72
656159--656190	9	3.6	9	100	0	64	53	0	21	25	1.46
656353--656386	17	2.0	17	100	0	68	23	29	17	29	1.97
659985--660016	15	2.1	15	94	0	55	46	9	18	25	1.79
664185--664216	3	10.7	3	100	0	64	65	0	0	34	0.93
664699--664736	20	1.9	20	94	0	67	23	5	2	68	1.23
668849--669172	41	8.2	41	78	9	287	34	16	20	28	1.94
668889--669031	71	2.0	70	82	5	171	34	15	21	28	1.94
668789--669074	112	2.5	113	82	3	344	36	17	20	25	1.95
668979--669172	81	2.4	81	84	0	244	34	17	19	28	1.95
671389--671492	32	3.2	32	87	0	145	34	14	17	33	1.90
671389--671511	64	1.9	64	81	3	149	33	15	16	34	1.90
671870--671907	18	2.1	18	90	0	58	15	7	13	63	1.51
675240--675350	57	1.9	57	92	0	186	31	9	19	38	1.85
676587--676620	17	2.0	17	94	0	59	44	5	14	35	1.70
679191--679299	40	2.7	40	92	0	173	22	15	28	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679364--679398	13	2.7	13	95	0	61	31	0	22	45	1.53
679416--679488	24	3.2	24	63	28	59	42	8	20	28	1.81
679389--679638	44	5.6	44	91	3	367	39	5	22	33	1.77
682493--682550	19	3.2	19	79	15	61	75	0	13	10	1.04
682513--682565	24	2.2	24	86	3	70	77	0	16	5	0.96
682512--682594	25	3.2	26	76	13	73	74	1	18	6	1.08
686479--686600	40	3.0	40	93	0	217	23	17	25	33	1.96
686677--686882	46	4.6	44	92	4	315	37	6	22	33	1.79
688830--688870	17	2.4	17	91	4	64	65	4	17	12	1.42
689760--689826	13	4.9	12	77	18	53	80	1	13	4	0.93
689741--689856	50	2.3	50	82	5	128	76	1	12	8	1.08
689762--689827	23	2.9	21	80	15	69	80	1	13	4	0.94
691382--691424	21	2.1	20	83	12	52	25	11	11	51	1.72
691469--691499	14	2.2	14	94	0	53	19	3	0	77	0.90
691470--691547	22	3.5	22	79	10	86	26	1	1	70	1.03
691480--691551	3	25.0	3	78	16	73	29	0	1	69	0.97
691468--691551	30	2.8	29	84	8	98	27	1	1	70	1.02
691503--691560	9	6.9	9	77	15	52	36	1	0	62	1.06
691772--691801	15	2.0	15	100	0	60	0	33	26	40	1.57
691774--691809	15	2.4	15	90	0	54	2	38	25	33	1.70
692750--692799	20	2.4	22	83	12	61	34	6	2	58	1.34
692788--692837	14	3.6	14	80	17	52	32	0	2	66	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
692765--692862	12	7.6	13	76	18	50	31	2	2	64	1.16
692826--692858	3	11.0	3	100	0	66	33	0	0	66	0.92
692991--693276	156	1.8	153	86	4	412	38	6	6	48	1.56
696368--696400	16	2.1	16	94	0	57	27	18	3	51	1.60
701171--701559	202	1.9	202	80	5	446	35	10	13	39	1.79
701411--701756	175	2.0	174	81	5	405	36	12	13	38	1.82
702847--703034	99	1.9	99	83	2	243	34	12	14	38	1.84
704581--704624	21	2.1	21	87	4	63	36	13	25	25	1.92
705072--705196	20	5.6	20	64	26	54	42	12	27	18	1.85
705014--705505	47	10.6	47	85	2	638	45	12	21	20	1.84
705304--705383	20	3.7	20	70	20	61	42	11	27	18	1.84
706516--706553	18	2.2	18	85	4	51	39	5	26	28	1.78
706396--706596	94	2.1	95	80	6	230	39	12	22	25	1.89
706997--707453	20	19.7	20	63	25	86	43	12	23	20	1.86
707017--707104	27	3.5	26	72	20	89	43	13	25	18	1.86
706984--707480	47	10.6	47	90	0	742	44	12	22	20	1.85
707867--708119	126	2.0	126	98	1	490	32	7	22	37	1.83
708136--709138	369	2.7	368	81	5	1145	31	16	9	42	1.80
708099--709130	187	5.6	186	80	4	990	31	16	9	42	1.80
709401--709515	47	2.4	47	91	0	185	43	13	22	20	1.86
710054--710645	186	3.2	184	81	7	598	32	16	8	43	1.78
710621--710669	24	2.0	24	92	0	80	32	10	6	51	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
713069--713145	37	2.1	37	100	0	154	36	24	7	31	1.84
714798--714822	12	2.1	12	100	0	50	24	52	0	24	1.48
717293--717327	17	2.1	17	88	0	52	34	14	20	31	1.92
718116--718155	20	2.0	20	95	0	71	25	42	10	22	1.84
718864--718933	35	2.0	35	86	10	99	30	28	12	28	1.93
722246--722301	23	2.5	23	85	2	78	41	21	16	21	1.90
723043--723112	35	2.0	35	86	10	99	30	28	12	28	1.93
724050--724095	21	2.2	21	84	7	58	23	26	15	34	1.94
730210--730249	18	2.3	18	91	4	64	17	45	25	12	1.83
730264--730441	29	6.1	30	86	3	215	32	5	22	40	1.76

Tables:   1   2   3   4