genome.fa.s9021.2.7.7.80.10.50.1000.3.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: VEPZ01009021.1 Hibiscus syriacus cultivar Beakdansim tig00112411_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1242735

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 520 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)
513064--513099	17	2.1	17	90	10	56	30	22	25	22	1.99
513082--513121	11	3.6	11	89	0	62	30	22	22	25	1.99
520703--520727	2	12.5	2	100	0	50	48	0	0	52	1.00
533120--533156	10	3.7	10	92	7	58	16	51	21	10	1.74
535928--535970	21	2.0	21	81	0	50	34	30	13	20	1.92
539406--539468	30	2.1	30	96	0	117	52	14	6	26	1.65
540129--540163	2	17.5	2	100	0	70	51	0	0	48	1.00
540166--540210	21	2.1	21	87	0	63	40	6	15	37	1.74
549577--549648	2	36.5	2	97	2	137	51	0	0	48	1.00
549845--549944	24	4.2	24	82	7	78	43	19	13	25	1.86
549862--549953	24	3.8	24	84	5	123	40	18	15	26	1.90
554682--554720	12	3.2	12	86	13	62	41	23	7	28	1.82
554674--554740	24	2.8	24	86	8	100	41	19	10	28	1.84
561080--561119	2	19.0	2	85	10	53	50	2	2	45	1.28
581065--581091	2	13.5	2	100	0	54	51	0	0	48	1.00
594969--595247	142	2.0	142	92	0	468	26	16	17	39	1.91
596479--596530	24	2.2	24	83	13	63	44	1	7	46	1.43
596688--596718	16	1.9	16	100	0	62	45	0	12	41	1.42
604662--604704	20	2.2	19	83	8	50	44	13	11	30	1.80
613982--614019	20	1.9	20	100	0	76	36	10	28	23	1.88
617316--617357	3	14.0	3	94	0	75	66	2	0	30	1.04
645148--645279	65	2.0	65	85	5	178	38	7	24	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
647988--648048	17	3.3	20	65	25	62	57	1	6	34	1.34
647989--648063	34	2.2	34	97	2	143	58	2	5	33	1.34
658463--658582	2	60.0	2	100	0	240	50	0	0	50	1.00
665663--665700	2	19.0	2	100	0	76	50	0	0	50	1.00
666576--666642	21	3.3	21	75	8	75	23	23	20	31	1.98
666583--666637	19	2.8	20	80	5	67	23	21	21	32	1.98
674388--674455	29	2.3	29	97	0	127	5	32	7	54	1.52
674841--674877	17	2.2	17	86	13	51	54	0	8	37	1.30
688270--688457	94	2.0	94	100	0	376	25	27	19	27	1.99
693288--693327	20	2.0	20	100	0	80	60	15	15	10	1.60
705196--705257	31	2.0	31	87	0	88	41	11	19	27	1.85
710761--710819	30	2.0	30	100	0	118	49	13	3	33	1.59
727875--727913	14	2.7	15	88	4	53	43	2	0	53	1.14
734655--734862	105	2.0	103	97	1	389	44	15	17	22	1.86
736371--736404	2	17.0	2	100	0	68	50	0	0	50	1.00
736406--736470	3	22.0	3	76	3	60	58	0	0	41	0.98
736399--736470	18	4.1	17	82	7	90	56	0	0	43	0.99
736616--737709	76	14.4	76	96	0	2017	34	22	19	23	1.96
737713--738038	168	2.0	165	90	3	519	38	12	14	34	1.84
738554--738630	22	3.5	22	90	0	127	41	12	10	35	1.78
738998--739159	54	3.0	54	90	0	261	22	24	14	38	1.91
746362--746401	21	1.9	21	94	0	71	52	10	15	22	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
746475--746537	31	2.0	32	90	3	101	42	17	11	28	1.83
748437--748477	17	2.4	18	84	11	52	70	0	2	26	0.99
748912--748965	27	2.0	27	85	7	74	50	0	1	48	1.11
749250--749287	3	13.0	3	88	5	60	71	0	0	28	0.87
749245--749285	20	2.0	20	90	0	64	70	2	0	26	0.99
750624--750699	3	25.3	3	80	5	82	59	0	0	40	0.98
750602--750698	12	8.4	12	74	19	55	56	0	0	43	0.99
758758--758787	16	1.9	15	93	6	51	56	0	6	36	1.26
759399--759465	27	2.4	27	82	7	71	38	4	2	53	1.36
759779--759824	2	23.5	2	95	4	85	47	0	0	52	1.00
764058--764086	12	2.3	13	94	5	51	34	0	44	20	1.52
765287--765365	22	3.4	23	67	23	67	35	10	5	49	1.59
765281--765381	47	2.2	47	98	1	195	38	7	5	47	1.57
772081--772113	17	1.9	17	100	0	66	51	0	0	48	1.00
772731--772778	18	2.8	17	81	6	51	47	4	0	47	1.21
772731--772764	17	1.9	17	88	5	50	55	0	0	44	0.99
773729--773770	17	2.4	18	80	7	52	52	2	7	38	1.42
774130--774190	30	2.0	30	96	0	113	32	11	19	36	1.88
781200--781242	6	7.2	6	100	0	86	34	0	65	0	0.93
783173--783208	18	2.0	18	100	0	72	38	5	16	38	1.72
784170--784262	4	23.8	4	91	4	154	49	25	0	24	1.51
796454--796492	21	1.9	20	84	5	51	10	0	53	35	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
797981--798053	33	2.2	33	79	15	89	31	1	1	65	1.09
797969--798053	21	3.9	21	80	16	93	30	2	1	65	1.12
797950--798051	12	9.3	11	75	18	81	29	1	1	66	1.13
800736--800774	14	2.8	14	88	0	60	28	12	5	53	1.60
806305--806646	114	3.0	114	94	0	576	33	15	19	30	1.93
808766--808966	54	3.8	52	81	7	221	38	14	20	25	1.91
809338--809392	22	2.5	22	87	0	83	36	10	14	38	1.81
809793--810359	113	5.0	113	98	0	1053	39	15	16	28	1.90
811992--812101	35	3.1	34	74	16	91	27	1	1	69	1.09
812008--812104	12	8.3	12	76	8	85	27	2	1	69	1.07
812013--812103	24	3.9	23	77	13	96	28	2	1	68	1.09
812329--812654	126	2.5	135	83	7	395	38	9	8	43	1.68
813070--813267	3	66.0	3	72	5	123	9	3	56	31	1.46
813053--813179	24	5.4	24	80	5	134	13	2	55	29	1.51
813053--813219	45	3.8	45	78	9	168	11	1	55	30	1.46
813115--813258	39	3.8	39	81	5	150	8	3	55	32	1.47
813292--813335	21	2.1	21	82	0	52	18	11	47	22	1.80
818656--819104	229	2.0	227	95	0	799	45	8	7	39	1.62
819170--819215	20	2.3	19	85	10	65	54	8	19	17	1.68
819337--819383	20	2.4	19	89	10	76	55	10	17	17	1.69
819341--819388	20	2.6	18	84	15	62	56	10	14	18	1.66
821618--821670	21	2.5	22	78	9	65	41	13	30	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
821716--821781	33	2.0	33	91	5	107	30	0	46	22	1.52
823576--823624	19	2.6	19	93	0	80	30	2	10	57	1.43
823743--825110	199	6.9	199	97	0	2519	37	15	15	31	1.90
823743--825110	594	2.3	596	96	1	2517	37	15	15	31	1.90
826568--826635	21	3.4	18	69	21	55	36	8	35	19	1.83
826568--826662	6	15.3	6	76	6	64	36	7	34	21	1.81
826583--826666	3	28.0	3	76	0	78	35	5	34	23	1.80
826568--826666	12	8.0	12	78	6	72	36	7	34	22	1.81
826571--826665	18	5.3	18	79	0	82	35	7	34	22	1.82
828129--828840	184	3.9	184	97	0	1316	35	14	16	33	1.89
831305--831369	25	2.6	25	80	0	85	35	9	13	41	1.77
831657--831720	23	2.8	23	87	0	92	35	6	20	37	1.78
831657--831729	23	3.2	23	82	7	85	34	5	20	39	1.76
831996--832046	25	2.0	25	92	0	84	33	7	19	39	1.81
832340--832376	18	2.1	18	89	0	56	32	5	10	51	1.60
832331--832381	24	2.1	23	82	13	66	33	3	13	49	1.61
833056--833119	23	2.8	23	87	0	92	35	6	20	37	1.78
833056--833128	23	3.2	23	82	7	85	34	5	20	39	1.76
833686--833745	29	2.1	29	100	0	120	30	20	20	30	1.97
834714--834769	2	28.0	2	100	0	112	50	0	0	50	1.00
838103--838192	42	2.1	42	89	0	135	34	25	12	27	1.92
842447--842489	21	2.0	21	82	8	52	37	18	0	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
851957--852001	23	2.0	23	82	8	56	68	2	2	26	1.12
852227--852340	60	1.9	60	81	3	140	32	17	14	35	1.91
854532--854559	2	14.0	2	100	0	56	50	0	0	50	1.00
854799--854834	14	2.6	14	90	0	54	47	0	0	52	1.00
854808--854835	14	2.0	14	100	0	56	50	0	0	50	1.00
868277--868509	2	120.0	2	75	15	204	45	4	3	46	1.38
873199--873226	2	14.0	2	100	0	56	50	0	0	50	1.00
873819--874658	6	144.2	6	91	8	1393	67	0	0	32	0.91
875395--875441	21	2.2	21	96	0	85	27	17	8	46	1.76
888714--888747	6	5.8	6	93	6	61	67	0	0	32	0.91

Tables:   1   2   3   4   5