genome.fa.s1174.2.7.7.80.10.50.1000.3.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: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2182627

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1247 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)
543400--543449	18	2.8	18	87	0	73	26	32	22	20	1.98
543956--544255	149	2.0	150	98	1	584	40	19	19	21	1.91
544500--544563	31	2.1	31	82	5	76	34	21	23	20	1.97
544787--544953	57	2.9	59	83	5	232	46	12	7	33	1.71
546599--546638	21	1.9	21	90	10	64	32	7	5	55	1.50
548569--548726	65	2.4	63	80	9	167	27	17	23	31	1.97
550479--550536	20	2.8	21	79	10	66	55	5	8	31	1.52
550479--550559	43	1.9	42	82	9	103	54	4	11	29	1.56
551771--551808	19	1.9	19	89	5	58	42	10	10	36	1.74
551865--551904	20	2.0	21	95	5	73	37	22	15	25	1.93
553728--553819	42	2.2	42	78	3	107	34	26	11	27	1.91
558520--558548	11	2.6	11	100	0	58	44	10	17	27	1.81
559481--559521	14	2.8	15	82	13	50	43	7	24	24	1.79
559654--559729	21	3.6	21	72	19	68	22	18	26	32	1.97
559654--559738	43	2.0	43	90	0	134	23	17	27	31	1.97
559664--559730	22	3.1	22	74	18	68	23	17	25	32	1.97
559671--559741	21	3.3	22	70	20	60	26	16	23	32	1.96
560864--560894	16	1.9	16	93	0	53	22	3	12	61	1.46
574637--574663	11	2.5	11	100	0	54	7	0	51	40	1.30
579381--579426	19	2.3	20	88	3	67	32	13	23	30	1.93
584913--584958	19	2.3	20	88	3	67	32	13	23	30	1.93
594624--595445	412	2.0	412	100	0	1644	31	10	14	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595277--595570	131	2.2	131	81	2	349	32	8	14	43	1.76
598839--598927	39	2.2	40	80	11	110	25	13	21	39	1.90
598861--598942	39	2.0	40	81	9	96	29	14	20	35	1.93
598890--599099	82	2.6	80	79	7	217	32	17	15	33	1.92
598890--599182	83	3.6	81	76	7	277	33	16	15	34	1.90
604767--604942	29	6.3	29	79	7	152	46	15	2	35	1.59
612085--612263	29	6.3	29	79	6	143	44	17	1	36	1.59
612093--612261	84	2.0	85	81	2	196	46	14	1	37	1.56
613258--613651	43	9.2	42	76	6	362	27	21	18	32	1.96
613262--613651	85	4.6	85	81	5	401	28	21	17	32	1.96
613324--613651	128	2.6	127	78	8	324	28	20	17	33	1.95
613263--613651	171	2.3	171	80	5	437	28	20	17	32	1.96
613993--614114	34	3.6	34	73	17	119	41	1	9	47	1.45
613953--614109	68	2.3	68	96	0	287	42	1	10	45	1.49
613948--614114	34	4.9	33	72	17	112	41	2	9	46	1.49
614810--614850	20	2.0	20	95	0	73	56	14	12	17	1.68
615280--615348	36	1.9	36	100	0	138	44	13	14	27	1.82
615552--615580	2	15.0	2	92	7	51	51	0	0	48	1.00
616605--616634	15	2.0	15	93	0	51	16	13	6	63	1.50
622661--622698	3	12.7	3	94	0	67	36	0	0	63	0.95
624562--624628	15	4.4	15	75	3	62	40	26	5	26	1.79
631537--631579	22	1.9	23	85	4	61	62	4	0	32	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636529--636623	18	5.3	19	75	15	69	74	1	10	13	1.12
636554--636600	14	3.4	14	88	5	60	80	0	6	12	0.88
636538--636609	33	2.2	33	85	7	92	77	1	8	12	1.04
636547--636604	9	6.2	9	76	13	55	79	0	6	13	0.93
636565--636612	13	3.5	13	83	8	51	79	0	4	16	0.89
636547--636612	22	2.8	23	77	6	62	77	0	7	15	0.98
636664--636722	2	29.5	2	86	6	84	54	1	0	44	1.10
642279--643120	106	8.0	106	87	5	1086	34	23	19	22	1.97
642374--643120	305	2.4	306	88	4	1059	34	23	19	22	1.97
642681--643120	210	2.1	211	91	0	702	33	23	19	23	1.97
642279--643091	411	2.0	414	89	2	1240	34	23	18	22	1.96
644015--644057	18	2.5	17	85	7	61	25	4	2	67	1.22
644594--644629	2	18.0	2	100	0	72	50	0	0	50	1.00
644643--644703	14	4.2	14	77	10	52	14	9	0	75	1.04
644795--644819	13	1.9	13	100	0	50	24	8	0	68	1.16
645330--645380	14	3.7	14	78	2	50	49	17	1	31	1.58
648887--648920	7	4.9	7	100	0	68	29	29	11	29	1.92
650486--650549	20	3.2	20	69	8	58	35	25	12	26	1.91
650535--650588	21	2.5	21	76	8	56	42	24	9	24	1.83
650576--650722	77	1.9	78	91	1	242	31	23	14	29	1.94
651138--651182	20	2.2	21	88	4	65	28	11	26	33	1.91
651035--651182	78	1.9	78	81	5	183	29	12	22	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652692--652736	23	2.0	23	86	0	63	57	13	11	17	1.64
654541--654611	22	3.1	23	80	17	69	43	0	5	50	1.25
654556--654611	22	2.6	21	86	13	71	44	0	3	51	1.18
663638--663677	9	4.4	9	96	0	71	77	20	2	0	0.88
673426--673464	19	2.1	19	100	0	78	35	28	30	5	1.79
675835--675918	16	5.5	15	74	16	66	78	2	4	14	1.01
675833--675918	21	4.5	19	75	11	54	77	2	5	13	1.04
675839--675918	31	2.6	31	86	7	101	78	2	5	13	1.01
675879--675926	17	2.9	17	79	20	57	81	0	2	16	0.79
675871--675925	21	2.7	21	78	15	71	80	0	3	16	0.86
675835--675918	5	16.4	5	71	22	59	78	2	4	14	1.01
675951--676031	2	42.0	2	90	7	132	50	0	1	48	1.08
676188--676785	302	2.0	297	95	3	1076	40	12	17	28	1.86
677380--677415	19	2.0	19	89	10	58	16	19	36	27	1.93
684511--684556	18	2.8	17	77	16	51	71	4	10	13	1.27
684630--684700	2	36.0	2	94	2	126	47	0	1	50	1.09
691176--691210	2	17.5	2	100	0	70	48	0	0	51	1.00
697820--697854	18	1.9	18	94	0	61	54	17	2	25	1.57
697978--698018	21	2.0	20	85	4	55	43	29	0	26	1.55
705821--705855	15	2.2	16	90	5	54	22	25	28	22	1.99
706320--706435	39	3.0	39	91	5	173	22	14	20	42	1.89
706912--706945	16	2.1	16	88	0	50	35	0	20	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
709423--709483	22	2.8	22	92	0	95	26	16	24	32	1.96
720839--720915	22	3.5	22	85	1	91	27	22	19	31	1.98
723275--723305	16	1.9	16	100	0	62	38	6	25	29	1.81
724441--724556	39	3.0	39	85	2	144	24	14	19	41	1.89
728023--728110	31	2.8	31	91	0	140	46	13	18	21	1.83
728615--728639	2	12.5	2	100	0	50	52	0	0	48	1.00
733563--733588	13	2.0	13	100	0	52	38	15	23	23	1.92
735068--735797	186	3.9	185	78	8	664	40	11	14	33	1.82
736264--736398	67	2.0	68	84	4	175	27	14	11	46	1.79
737319--737363	13	3.5	13	81	0	54	15	2	13	68	1.30
741345--741378	12	2.8	12	90	0	50	41	2	0	55	1.15
741350--741387	12	3.0	13	85	14	53	44	5	0	50	1.24
744378--744671	138	2.1	138	92	1	464	29	14	13	42	1.83
744651--744691	13	3.5	13	75	25	54	39	4	9	46	1.58
744649--744693	22	2.0	22	100	0	90	42	4	8	44	1.56
744515--744823	161	1.9	160	89	0	483	30	14	11	42	1.82
744378--744970	299	2.0	298	90	1	927	29	14	12	42	1.83
744671--745252	138	4.2	138	83	3	675	28	14	12	44	1.81
744671--745176	277	1.8	277	86	2	730	29	14	12	43	1.82
744678--745290	277	2.2	277	82	4	709	28	14	12	44	1.82
750340--750390	19	2.6	19	84	3	66	33	31	13	21	1.92
750420--750511	40	2.3	40	92	0	148	44	17	16	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750401--750590	20	9.5	20	74	2	121	41	18	16	23	1.90
750401--750590	60	3.2	58	78	9	177	41	18	16	23	1.90
751113--751159	20	2.3	20	88	0	67	51	19	14	14	1.77
751123--751174	20	2.4	21	87	9	70	51	13	19	15	1.75
752690--752786	42	2.3	42	82	3	115	32	35	14	17	1.90
752969--753018	21	2.4	21	80	6	57	20	12	38	30	1.88
753027--753085	21	2.8	21	92	0	100	22	13	27	37	1.91
753027--753099	21	3.5	21	88	0	92	20	16	27	35	1.94
753196--753237	12	3.5	12	83	6	50	23	0	7	69	1.13
753381--753475	21	4.5	21	77	3	102	24	33	16	25	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11