genome.fa.s8359.2.7.7.80.10.50.1000.5.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: VEPZ01008359.1 Hibiscus syriacus cultivar Beakdansim tig00111098_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1252926

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 669 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)
888804--888853	20	2.5	20	78	12	59	40	2	2	56	1.22
888771--888857	31	2.8	30	79	10	95	41	1	3	54	1.25
889555--889641	31	2.8	30	81	10	95	54	3	1	41	1.25
889550--889617	19	3.5	20	73	15	54	54	1	2	41	1.24
892486--892543	21	2.8	21	89	0	80	65	6	5	22	1.37
895446--895531	44	2.0	44	100	0	172	41	9	29	19	1.83
896041--896176	33	4.1	33	84	3	175	47	10	22	19	1.80
896041--896176	66	2.1	66	87	2	193	47	10	22	19	1.80
898033--898079	21	2.2	21	96	0	85	27	31	19	21	1.97
898094--898230	21	6.6	21	72	9	111	21	19	23	35	1.96
898119--898264	42	3.5	42	83	1	179	24	18	21	34	1.96
898094--898265	42	4.1	42	80	7	174	24	19	22	34	1.96
898348--898384	6	6.2	6	100	0	74	35	48	16	0	1.46
899088--899348	21	12.7	19	76	13	189	34	23	19	21	1.96
899091--899239	42	3.5	42	96	1	262	34	24	20	20	1.96
899137--899348	63	3.4	61	84	7	227	35	24	19	20	1.96
899221--899348	40	3.1	42	81	6	165	35	23	20	21	1.96
899088--899340	42	6.1	40	88	4	212	34	23	20	21	1.97
906678--906707	15	2.0	15	93	0	51	30	0	23	46	1.52
907530--907592	3	21.3	3	90	9	103	34	0	0	65	0.93
909246--909310	22	3.2	22	62	28	52	30	12	12	44	1.79
909235--909314	39	2.1	39	97	0	151	31	13	12	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
911353--911407	26	2.1	26	83	6	67	20	18	1	60	1.46
913425--914523	106	10.5	106	92	2	1763	33	25	18	23	1.97
914296--914451	43	3.4	43	67	13	123	34	24	18	22	1.96
914291--914481	94	2.0	94	96	0	355	34	24	17	23	1.96
914645--914889	83	3.0	80	75	5	267	31	26	20	22	1.98
915480--915521	3	14.3	3	90	5	68	38	0	0	61	0.96
915482--915532	9	6.1	9	80	13	56	39	1	0	58	1.09
917163--917242	39	2.1	39	97	0	151	31	13	12	42	1.82
926580--926789	115	1.8	114	87	1	312	43	9	9	37	1.69
928368--928441	3	25.0	3	78	8	80	66	0	1	32	1.00
928783--929646	113	7.6	114	93	1	1368	28	19	14	36	1.92
930078--930132	22	2.5	22	84	0	74	36	16	12	34	1.87
930498--930609	54	2.1	54	93	0	188	22	24	16	36	1.94
940390--940599	115	1.8	114	87	1	312	43	9	9	37	1.70
942170--942252	3	28.0	3	80	7	89	65	0	1	33	1.01
943460--943505	24	1.9	24	86	0	65	19	23	19	36	1.95
946193--946233	20	2.0	21	85	4	57	58	2	2	36	1.24
947549--947634	3	28.7	3	92	0	145	63	2	1	32	1.14
947937--948471	224	2.4	227	88	2	791	28	19	13	38	1.89
947937--948471	113	4.8	113	90	2	771	28	19	13	38	1.89
949216--950001	82	9.5	82	97	0	1421	36	22	12	27	1.91
954080--954400	162	2.0	157	96	3	597	24	17	19	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
961750--961786	15	2.7	15	88	12	53	62	8	5	24	1.44
961777--961825	18	3.0	15	80	14	53	73	2	0	24	0.94
963857--963886	11	2.8	11	95	5	53	43	0	0	56	0.99
963882--963958	3	25.7	3	91	0	127	63	2	1	32	1.16
964909--964946	19	2.0	19	89	0	58	34	5	26	34	1.79
964959--964995	19	1.9	19	94	0	65	40	5	29	24	1.77
965298--965341	6	7.5	6	94	2	72	0	13	52	34	1.41
965434--965885	40	11.2	41	74	10	141	33	24	20	21	1.97
965475--965687	21	10.4	21	75	6	186	32	25	19	22	1.97
965435--965957	61	8.6	61	83	6	519	33	24	20	22	1.97
965658--965864	63	3.5	57	81	12	206	32	25	21	21	1.98
965751--965885	21	6.4	21	96	0	216	28	28	21	20	1.98
965716--965885	42	4.1	42	89	1	236	31	26	21	21	1.98
965716--965885	63	2.7	62	88	1	234	31	26	21	21	1.98
965903--965937	13	2.7	13	95	0	61	28	28	22	20	1.98
965968--966005	19	2.0	19	94	0	67	44	15	18	21	1.86
966460--966498	20	1.9	21	89	5	62	48	12	2	35	1.55
966455--966502	20	2.5	18	81	15	60	54	12	2	31	1.49
970107--970145	20	2.0	20	89	0	60	30	23	23	23	1.99
974357--974417	22	2.8	23	76	16	67	29	3	21	45	1.67
985123--985151	3	9.7	3	100	0	58	0	34	0	65	0.93
985437--985482	19	2.4	19	100	0	92	13	13	34	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992045--992099	25	2.2	25	78	18	62	41	16	0	41	1.48
996781--996808	2	14.0	2	100	0	56	50	0	0	50	1.00
997187--997238	19	2.7	19	96	3	95	42	13	11	32	1.80
1003254--1003291	19	2.0	19	85	10	51	36	0	2	60	1.11
1004439--1004472	11	3.1	11	86	0	50	82	0	2	14	0.79
1025701--1025742	2	21.0	2	95	0	75	50	2	0	47	1.14
1026026--1026060	16	2.2	16	89	0	52	45	2	0	51	1.16
1029635--1029675	4	10.2	4	100	0	82	75	0	0	24	0.80
1030720--1030767	16	3.1	16	78	21	50	81	4	2	12	0.93
1030789--1031042	35	7.1	34	72	17	146	43	5	5	45	1.50
1030789--1031028	103	2.3	105	79	11	251	43	5	5	45	1.49
1030837--1031027	32	5.5	36	72	14	127	42	4	5	47	1.47
1031469--1031585	33	3.6	33	89	2	191	31	8	19	40	1.82
1031842--1031906	21	3.4	21	68	24	70	33	12	29	24	1.92
1031571--1032116	36	15.1	36	90	2	819	38	13	23	25	1.91
1032227--1032312	32	2.6	31	82	10	93	20	20	27	30	1.98
1032582--1033471	106	8.4	106	91	0	1411	23	18	25	33	1.96
1032582--1033471	212	4.2	212	95	0	1568	23	18	25	33	1.96
1033648--1033678	16	1.9	16	93	0	53	16	6	29	48	1.70
1037496--1037529	4	8.5	4	93	0	59	73	0	0	26	0.83
1038569--1038613	6	7.5	6	80	9	56	82	2	0	15	0.77
1038569--1038613	17	2.5	18	89	7	65	82	2	0	15	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038569--1038631	25	2.4	27	82	15	80	79	3	1	15	0.94
1038648--1038887	36	6.8	33	72	18	141	43	5	5	45	1.48
1038710--1038794	32	2.7	31	85	7	109	38	7	7	47	1.58
1038648--1038888	103	2.3	106	80	11	264	43	5	4	46	1.48
1038794--1038887	35	2.6	37	81	8	113	44	2	4	48	1.34
1038916--1038962	2	24.0	2	82	4	60	46	0	6	46	1.28
1041322--1041348	11	2.5	11	100	0	54	74	7	11	7	1.23
1055160--1055200	3	13.7	3	100	0	82	68	0	0	31	0.90
1055668--1055724	24	2.4	24	93	0	96	49	24	5	21	1.70
1058078--1058119	4	10.5	4	100	0	84	26	0	23	50	1.50
1059134--1059159	12	2.2	12	100	0	52	34	0	0	65	0.93
1059927--1059965	14	2.7	15	80	4	53	48	17	2	30	1.61
1060957--1061014	29	2.0	29	80	12	66	25	5	0	68	1.10
1061962--1062026	31	2.1	31	85	2	87	35	38	4	21	1.74
1062068--1062108	16	2.5	16	88	4	55	36	0	2	60	1.10
1062068--1062108	17	2.5	16	88	11	57	36	0	2	60	1.10
1068002--1068084	27	3.1	27	92	0	139	34	26	10	27	1.90
1071213--1071395	95	1.9	95	87	2	269	38	12	24	24	1.89
1072641--1072675	18	1.9	18	94	0	61	28	34	14	22	1.93
1073684--1073760	21	4.1	20	70	23	76	19	33	28	18	1.95
1073873--1073913	21	2.0	21	90	0	64	26	19	26	26	1.99
1073943--1073982	20	1.9	21	85	10	55	37	37	10	15	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075255--1075313	3	20.0	3	87	3	84	69	1	28	0	0.98
1077044--1077122	21	4.0	21	72	24	91	18	37	27	15	1.91
1077234--1077274	21	2.0	21	95	0	73	24	19	29	26	1.98
1078932--1079359	81	5.3	81	89	0	633	36	11	21	30	1.88
1078932--1079359	161	2.6	162	88	0	651	36	11	21	30	1.88
1080353--1080402	16	3.1	16	75	16	50	26	8	4	62	1.41
1083486--1083523	2	19.0	2	100	0	76	50	0	0	50	1.00
1085393--1085437	16	2.8	17	80	19	60	26	8	0	64	1.23
1088667--1088710	21	2.2	20	87	4	61	31	27	25	15	1.96
1089554--1089706	31	5.0	31	92	2	247	22	20	20	36	1.95

Tables:   1   2   3   4   5   6