genome.fa.s8372.2.7.7.80.10.50.1000.5.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: VEPZ01008372.1 Hibiscus syriacus cultivar Beakdansim tig00111128_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1214897

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 660 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)
848564--848634	33	2.2	33	97	0	133	9	23	18	47	1.78
848562--848612	14	3.0	18	70	24	56	9	23	21	45	1.82
848714--848790	21	3.7	21	80	13	104	48	16	23	11	1.79
848775--848831	14	3.7	14	75	20	60	43	22	24	8	1.81
848767--848847	33	2.5	33	95	0	144	46	22	22	8	1.78
848865--848921	14	3.7	14	75	20	60	8	24	22	43	1.81
848848--848970	33	3.5	33	88	10	165	10	23	18	47	1.80
848906--848970	21	3.1	21	86	4	105	10	24	15	49	1.76
850966--850992	14	1.9	14	100	0	54	48	29	14	7	1.71
850894--851008	19	6.3	19	83	10	150	46	28	15	8	1.75
851004--851176	19	9.6	19	76	12	159	10	20	23	45	1.81
851026--851082	14	3.7	14	75	20	51	10	22	22	43	1.84
851004--851176	33	4.8	38	80	8	168	10	20	23	45	1.81
853082--853117	14	2.6	14	95	0	63	33	0	22	44	1.53
853224--853322	19	5.4	19	78	14	118	45	15	23	16	1.84
853224--853341	53	2.2	53	92	3	202	44	16	24	15	1.86
853337--853554	53	4.1	52	87	10	302	14	22	17	45	1.84
853331--853540	72	2.9	71	84	8	255	15	22	17	45	1.85
855835--855859	12	2.1	12	100	0	50	0	28	0	72	0.86
856772--856980	20	10.4	20	85	2	213	19	17	25	37	1.93
864353--864391	18	2.2	18	100	0	78	28	30	0	41	1.57
868746--869237	244	2.0	238	94	5	851	34	11	16	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
872338--872395	29	2.0	29	86	3	80	68	1	3	25	1.14
874119--874199	30	2.7	29	82	5	99	38	38	3	19	1.70
874131--874187	29	1.9	30	92	3	98	43	36	1	17	1.60
880074--880135	29	2.1	31	93	6	110	66	4	0	29	1.12
883173--883240	32	2.1	33	88	2	102	32	26	7	33	1.84
884663--884719	25	2.3	23	77	16	60	49	3	5	42	1.42
884677--884724	25	1.9	25	95	0	87	47	2	4	45	1.33
884710--884740	12	2.5	13	89	10	55	48	0	0	51	1.00
884686--884774	16	5.1	16	70	25	56	42	0	2	55	1.12
886633--886683	25	2.1	24	85	10	68	60	1	0	37	1.08
888486--888515	16	1.9	15	93	6	51	50	0	0	50	1.00
889726--889757	3	10.7	3	93	0	55	62	3	0	34	1.11
893970--894091	46	2.7	46	87	1	165	33	17	18	31	1.94
896005--896086	23	3.6	23	73	17	73	29	23	24	23	1.99
896011--896105	44	2.2	44	83	11	115	31	20	22	26	1.98
899520--900215	345	2.0	345	97	0	1302	25	14	22	37	1.92
902130--902351	117	1.9	117	82	7	281	29	13	9	47	1.74
903682--903786	45	2.3	46	90	1	158	31	17	20	31	1.95
903833--903870	20	1.9	20	88	0	58	21	15	31	31	1.94
904181--904226	24	1.9	24	90	0	74	65	15	8	10	1.47
924661--924703	21	2.0	21	95	0	77	32	27	13	25	1.94
931491--931528	17	2.3	17	90	4	60	57	5	0	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
931506--931551	24	1.9	24	86	8	67	65	4	0	30	1.12
932790--932826	18	2.1	18	89	0	56	51	10	5	32	1.60
933213--933262	25	2.0	25	96	0	91	44	22	8	26	1.80
940261--940304	12	3.6	12	87	3	61	45	0	0	54	0.99
940424--940462	17	2.3	17	86	0	51	38	5	5	51	1.46
941087--941140	26	2.1	26	93	6	92	35	7	24	33	1.83
941120--941165	20	2.3	20	92	0	74	21	8	32	36	1.84
941144--941294	76	2.0	76	96	0	275	31	7	23	37	1.83
956639--956800	21	8.1	21	77	12	153	22	21	22	33	1.97
956685--956812	61	2.1	61	97	0	238	22	21	21	33	1.97
957148--957182	18	1.9	18	100	0	70	28	31	5	34	1.81
958208--958312	20	5.2	20	74	13	108	40	20	18	20	1.92
958439--958490	22	2.3	23	80	9	63	23	36	11	28	1.90
958697--958723	13	2.1	13	100	0	54	0	7	14	77	0.97
960755--960792	4	9.5	4	100	0	76	23	0	0	76	0.79
960938--961030	42	2.2	41	84	5	116	25	34	15	24	1.94
960938--961030	21	4.5	21	73	6	73	25	34	15	24	1.94
961656--961742	15	5.8	15	72	22	67	45	0	0	54	1.00
961696--961742	8	6.0	8	76	14	53	40	0	0	59	0.97
961658--961742	21	4.4	19	73	23	79	44	0	0	55	0.99
961658--961730	3	25.3	3	75	8	71	43	0	0	56	0.99
962424--962452	13	2.2	13	100	0	58	0	31	62	6	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
962742--962771	12	2.5	12	94	0	51	36	0	0	63	0.95
962732--962808	30	2.5	31	79	10	86	40	0	1	58	1.06
962769--962793	12	2.1	12	100	0	50	48	0	0	52	1.00
963746--963785	16	2.5	16	87	0	62	27	0	0	72	0.85
968338--968362	11	2.3	11	100	0	50	84	0	16	0	0.63
970290--970598	114	2.7	115	87	3	437	32	15	20	31	1.94
971541--971719	76	2.4	76	83	3	209	31	17	22	28	1.97
972998--973074	22	3.5	22	89	0	127	36	11	12	38	1.80
973752--974799	75	13.9	76	92	3	1672	22	20	21	35	1.96
973752--974799	226	4.6	226	93	2	1739	22	20	21	35	1.96
974973--975067	15	6.8	15	76	18	64	43	0	0	56	0.99
974975--975067	18	5.4	17	82	10	109	41	0	0	58	0.98
974975--975067	24	3.8	26	78	21	105	41	0	0	58	0.98
974975--975055	3	28.3	3	80	9	98	40	0	0	59	0.98
976473--976663	106	1.8	104	80	6	233	40	9	9	39	1.72
977729--977868	65	2.2	65	82	9	166	33	1	15	50	1.53
978482--978518	18	2.1	18	89	0	56	51	10	5	32	1.60
978905--978954	25	2.0	25	96	0	91	44	22	8	26	1.80
979405--979440	18	2.0	18	94	0	63	16	2	25	55	1.55
982654--982821	20	8.6	20	82	5	130	25	13	21	39	1.90
982654--982782	19	6.7	19	83	4	125	27	12	20	38	1.89
982812--982861	21	2.4	21	96	0	91	32	10	24	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988524--988566	2	21.5	2	100	0	86	48	0	0	51	1.00
989000--989076	37	2.1	36	83	9	93	46	1	3	48	1.28
989222--989259	20	1.9	20	88	0	58	21	26	10	42	1.85
992067--992107	18	2.3	18	83	12	57	46	2	0	51	1.14
992068--992108	19	2.2	19	91	8	66	43	2	0	53	1.13
996022--996060	2	19.5	2	94	0	69	51	2	0	46	1.14
996810--996838	2	15.0	2	92	7	51	51	0	0	48	1.00
1005754--1005797	20	2.3	19	81	11	54	27	25	2	45	1.65
1007823--1007874	17	3.2	17	75	10	54	51	13	1	32	1.52
1013249--1013638	185	2.1	185	91	1	631	45	8	3	43	1.49
1013547--1013640	39	2.3	41	77	10	104	43	0	1	55	1.06
1016660--1016698	19	2.1	19	85	9	53	58	0	0	41	0.98
1016945--1016991	20	2.3	21	78	10	62	63	8	2	25	1.34
1017859--1017887	15	1.9	15	100	0	58	0	13	3	82	0.79
1018386--1018474	3	30.0	3	83	2	117	65	0	2	32	1.05
1018720--1019499	114	6.9	114	93	1	1275	28	20	13	37	1.90
1020129--1020584	52	8.8	52	93	2	767	38	22	15	23	1.92
1021743--1021804	23	2.7	22	78	9	61	6	14	0	79	0.93
1021775--1021801	14	1.9	14	100	0	54	0	18	0	81	0.69
1033737--1033765	15	1.9	15	100	0	58	0	13	0	86	0.58
1034255--1034351	3	32.0	3	83	6	124	61	0	2	36	1.07
1034255--1034351	21	4.6	21	93	2	142	61	0	2	36	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036144--1036192	18	2.5	20	84	12	59	26	22	26	24	2.00
1038115--1038155	16	2.6	16	88	3	57	36	12	21	29	1.90
1045441--1045491	21	2.5	20	78	6	50	43	7	1	47	1.43
1046734--1046862	61	2.1	61	81	4	145	49	6	11	31	1.66
1054277--1054667	186	2.1	185	91	1	624	43	2	7	46	1.45
1061286--1061327	3	14.0	3	100	0	84	66	0	0	33	0.92
1061879--1061947	32	2.2	32	84	5	88	76	4	7	11	1.12
1061892--1061967	18	4.2	18	79	14	61	78	2	6	11	1.03
1061931--1061967	17	2.1	18	90	5	58	83	0	2	13	0.74
1063435--1063497	29	2.1	30	82	11	76	74	3	7	14	1.16

Tables:   1   2   3   4   5   6