genome.fa.s8593.2.7.7.80.10.50.1000.4.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: VEPZ01008593.1 Hibiscus syriacus cultivar Beakdansim tig00111542_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1058705

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 494 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)
879086--879154	9	7.3	9	73	9	57	15	27	27	28	1.96
879095--879148	19	2.8	20	77	11	58	16	25	27	29	1.97
879114--879150	19	1.9	19	94	0	65	18	27	24	29	1.98
879151--879192	5	8.6	5	78	5	50	19	54	19	7	1.66
880730--880764	4	8.8	4	100	0	70	51	22	0	25	1.48
881518--881566	25	1.9	26	91	4	82	26	14	18	40	1.89
883723--883856	69	1.9	69	83	3	171	29	19	23	27	1.98
884160--885176	210	4.8	210	91	3	1487	50	7	11	29	1.67
885200--885300	2	50.5	2	71	14	66	47	0	4	46	1.30
885266--885326	27	2.2	28	85	2	79	47	6	4	40	1.51
885443--885506	22	3.0	22	86	8	80	45	0	4	50	1.22
885479--885514	2	17.5	2	94	5	63	47	0	2	50	1.15
885515--885562	7	6.9	7	80	0	51	18	0	31	50	1.48
885515--885563	14	3.5	14	80	0	62	18	0	30	51	1.47
885524--885568	21	2.2	20	88	4	63	22	0	22	55	1.44
885517--885575	28	2.2	26	87	6	82	22	0	22	55	1.43
885559--885583	6	4.2	6	100	0	50	32	0	0	68	0.90
885591--885663	20	3.4	20	79	17	83	39	6	1	52	1.37
885602--885651	13	3.8	13	77	17	59	38	6	2	54	1.37
885604--885663	23	2.7	23	80	16	72	38	6	1	53	1.37
885615--885708	35	2.9	32	79	11	102	42	6	4	46	1.48
885615--885846	80	3.1	74	74	17	201	41	7	6	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
885729--885843	18	5.9	18	74	18	97	41	8	6	42	1.62
885726--885848	38	3.1	39	83	13	178	42	8	6	43	1.60
885811--885961	33	4.7	32	72	13	103	41	9	6	43	1.63
885873--886012	2	67.0	2	69	18	81	43	5	5	46	1.47
885726--885906	80	2.3	79	83	11	205	42	8	6	42	1.60
885790--886034	87	2.6	91	81	11	266	43	7	5	43	1.56
885874--886009	53	2.6	53	80	3	161	43	5	5	46	1.48
885822--885956	33	4.1	33	76	12	150	41	9	5	42	1.62
885840--885989	67	2.3	66	83	8	191	42	7	5	45	1.55
885967--886035	34	2.0	34	86	5	95	50	4	2	42	1.37
886052--886257	33	6.3	33	73	15	187	43	7	6	42	1.57
886073--886202	18	7.4	18	73	13	119	44	6	6	42	1.56
886130--886188	17	3.5	17	70	21	61	44	5	5	45	1.47
886179--886227	25	2.0	25	87	0	71	42	8	8	40	1.64
886241--886298	26	2.3	25	82	8	64	53	3	3	39	1.35
888978--889024	14	3.7	14	71	26	50	51	4	0	44	1.21
888976--889025	23	2.1	24	96	3	93	48	4	0	48	1.20
889294--889348	16	3.4	16	89	0	83	38	14	25	21	1.92
903893--903926	16	2.2	16	89	5	52	29	8	0	61	1.26
904588--904672	29	2.9	29	85	0	125	14	35	28	22	1.93
904676--904760	33	2.6	33	86	3	109	8	37	27	27	1.85
904742--904788	14	3.4	14	96	0	85	6	29	40	23	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
904775--904828	10	5.4	10	81	16	67	11	27	37	24	1.89
904775--904828	20	2.7	20	97	0	99	11	27	37	24	1.89
904724--904845	34	3.5	34	73	22	92	11	28	36	23	1.90
904885--904942	29	2.0	29	86	0	80	24	27	34	13	1.93
908543--908668	43	2.9	43	85	0	153	34	22	15	27	1.94
910050--910151	43	2.4	43	82	8	118	32	20	23	23	1.98
910079--910189	43	2.6	42	84	4	132	27	18	25	27	1.98
910518--910573	21	2.7	21	82	0	67	1	37	17	42	1.60
910538--910578	21	2.0	21	85	0	55	4	39	12	43	1.63
912269--912717	222	2.0	220	97	2	846	48	16	11	23	1.79
915552--915632	41	1.9	44	82	12	107	37	14	12	35	1.84
915492--915727	42	5.7	42	70	15	152	33	19	15	31	1.93
915899--916057	52	3.1	52	97	0	300	43	15	7	33	1.75
930267--930318	21	2.5	21	84	3	70	40	19	23	17	1.91
930307--930441	20	6.7	20	77	5	94	33	23	17	25	1.96
930286--930441	61	2.6	61	82	4	190	34	23	18	23	1.96
930609--930648	21	1.9	21	100	0	80	27	45	10	17	1.80
930719--930747	14	2.0	15	93	6	51	20	3	0	75	0.94
930858--930904	19	2.5	19	100	0	94	46	23	19	10	1.80
930934--930992	20	3.0	20	87	0	73	16	18	22	42	1.89
932301--932345	18	2.5	18	85	0	63	28	44	13	13	1.81
932822--932867	20	2.3	20	84	0	56	36	23	21	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
932833--932871	20	2.0	20	94	0	69	33	20	25	20	1.97
932861--932915	19	3.2	19	68	24	57	49	20	18	12	1.79
932861--932952	33	2.8	33	91	0	148	50	20	17	11	1.78
932861--932952	19	5.4	18	66	24	56	50	20	17	11	1.78
932969--933058	14	5.8	14	74	21	81	11	17	23	47	1.79
932964--933075	33	3.4	33	96	1	199	11	18	23	46	1.82
933060--933115	20	2.8	19	86	7	76	17	25	21	35	1.95
934763--934807	23	2.0	23	86	0	63	26	28	24	20	1.99
934786--935089	149	2.0	149	98	0	581	34	20	17	27	1.95
935951--935985	18	1.9	18	88	11	54	22	17	5	54	1.64
936623--936667	21	2.1	21	84	8	56	15	22	28	33	1.95
937853--938002	33	4.5	33	83	5	169	43	18	24	14	1.87
937842--938002	66	2.4	65	81	10	191	42	19	24	14	1.88
938156--938192	14	2.6	14	91	0	65	45	24	0	29	1.53
939541--939609	21	3.3	21	70	6	59	20	20	34	24	1.96
939582--939661	42	1.9	42	84	0	106	22	17	38	21	1.93
939883--940067	91	2.0	91	88	6	275	48	17	11	22	1.79
941748--941786	20	2.0	20	100	0	78	51	15	20	12	1.76
941815--941886	19	3.7	19	83	1	81	12	16	22	48	1.79
942417--942613	20	9.6	20	73	14	107	26	20	19	33	1.96
942480--942657	21	8.6	21	73	7	96	33	19	20	26	1.97
942480--942635	41	3.8	41	71	9	120	32	19	21	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
943176--943394	83	2.7	83	88	6	322	45	10	1	42	1.48
962242--962287	20	2.3	20	81	7	58	32	26	15	26	1.95
962295--962357	20	3.1	20	82	11	74	39	20	15	23	1.91
968883--968912	12	2.4	13	94	5	53	80	3	16	0	0.85
974282--974307	2	13.0	2	100	0	52	50	0	0	50	1.00
976383--976408	2	13.0	2	100	0	52	50	0	0	50	1.00
978851--978903	2	26.5	2	100	0	106	50	0	0	49	1.00
979756--979818	2	31.5	2	100	0	126	50	0	0	49	1.00
980031--980074	5	8.8	5	100	0	88	59	0	40	0	0.98
982798--982927	56	2.3	56	94	1	224	20	24	9	46	1.79
985121--985161	21	1.9	22	90	5	66	75	0	4	19	0.98
985790--985852	19	3.2	19	75	4	54	55	12	0	31	1.37
985755--985952	64	2.8	68	80	14	208	58	12	1	28	1.43
985810--985974	76	2.2	76	87	3	244	56	10	1	30	1.44
987648--987687	15	2.7	15	96	0	71	67	7	0	25	1.16
990632--990673	22	2.0	21	85	4	57	69	0	9	21	1.17
990671--990715	19	2.3	19	80	3	54	57	4	0	37	1.19
991188--991224	17	2.2	17	86	13	51	72	8	2	16	1.19
992519--992832	157	2.0	157	100	0	628	15	14	37	32	1.88
992868--992908	3	14.0	3	89	5	66	65	0	0	34	0.93
994936--994975	21	1.9	21	94	0	71	75	0	2	22	0.93
995024--995063	20	1.9	21	85	10	55	75	0	5	20	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
995644--995848	64	3.1	68	87	6	260	57	12	0	29	1.42
998180--998217	18	2.1	18	100	0	76	7	44	0	47	1.32
999001--999259	53	4.9	53	85	2	310	22	26	20	30	1.98
999278--999313	17	2.1	17	100	0	72	22	36	5	36	1.78
999525--999725	80	2.5	80	92	1	332	28	23	17	30	1.97
1014077--1014219	59	2.4	59	84	5	173	34	23	2	39	1.69
1014756--1014867	56	1.9	57	84	10	147	33	23	10	32	1.89
1015335--1015477	71	2.0	71	100	0	286	37	15	18	28	1.91
1021579--1021619	20	2.0	20	100	0	82	39	9	9	41	1.71
1031236--1031360	31	4.0	31	97	0	241	12	27	12	47	1.78

Tables:   1   2   3   4   5