genome.fa.s295.2.7.7.80.10.50.1000.5.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: VEPZ01000295.1 Hibiscus syriacus cultivar Beakdansim tig00000541_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2017499

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1002 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)
859886--859932	22	2.1	22	88	0	67	57	0	0	42	0.98
860330--860427	28	3.5	28	97	1	180	41	13	7	37	1.72
860719--860844	39	3.2	39	86	4	166	20	23	25	30	1.99
861107--861785	343	2.0	333	88	4	993	25	13	31	30	1.93
862130--862184	29	1.9	28	88	3	83	25	7	5	61	1.44
862924--862952	2	15.0	2	92	7	51	48	0	0	51	1.00
862941--863266	163	2.0	164	98	0	627	33	5	9	52	1.57
863484--863739	139	1.8	139	86	5	374	25	11	16	47	1.80
864501--864564	9	6.8	9	75	10	56	17	28	28	26	1.97
864519--864567	19	2.6	19	84	12	73	20	28	28	22	1.98
864501--864580	38	2.1	38	81	9	92	17	32	27	22	1.96
868205--868254	3	16.7	3	95	0	91	32	2	0	66	1.03
872395--872472	29	2.9	27	77	19	90	52	2	6	38	1.41
873191--873271	31	2.6	31	86	11	105	58	0	7	34	1.26
873193--873245	25	2.1	25	86	6	72	56	0	7	35	1.28
873186--873286	6	15.8	6	75	19	64	58	0	5	34	1.29
873156--873286	25	5.6	22	69	25	67	56	0	6	35	1.32
874202--874286	44	1.9	44	88	4	127	40	12	3	43	1.60
874510--874644	60	2.2	61	82	3	166	19	26	31	22	1.97
874861--874958	30	3.2	30	76	9	92	38	0	0	61	0.96
874861--874958	33	3.2	31	80	12	114	38	0	0	61	0.96
874889--874956	30	2.3	30	87	5	95	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
875039--875081	21	2.0	21	86	4	59	27	0	11	60	1.31
876706--876778	21	3.5	21	83	7	94	20	26	24	28	1.99
880518--880560	20	2.2	20	86	0	59	46	0	0	53	1.00
880530--880567	20	2.0	20	84	5	51	52	0	0	47	1.00
886075--886105	14	2.2	14	100	0	62	29	19	25	25	1.99
886975--887021	18	2.6	18	100	0	94	31	27	27	12	1.93
887035--887073	20	1.9	21	89	5	62	33	25	20	20	1.97
890967--891020	19	2.8	19	94	0	90	20	35	18	25	1.95
894432--894457	5	5.2	5	100	0	52	38	0	0	61	0.96
896610--896661	23	2.3	23	80	6	61	61	5	5	26	1.42
896762--896829	6	11.3	6	76	13	52	79	2	2	14	0.97
896766--896827	8	7.1	8	76	20	54	79	3	3	14	0.99
896776--896824	17	2.8	17	79	14	55	79	2	2	16	0.92
896788--896829	21	2.0	21	85	4	57	85	0	2	11	0.68
903078--903118	7	5.7	7	91	5	64	58	2	0	39	1.11
903132--903162	2	15.5	2	100	0	62	48	0	0	51	1.00
903088--903197	50	2.3	49	83	11	133	48	4	0	46	1.29
903144--903272	37	3.5	35	87	10	170	46	6	0	46	1.33
906292--906323	16	1.9	17	93	6	57	87	3	0	9	0.64
908213--908314	35	2.9	35	86	0	114	42	18	19	19	1.90
908485--908510	11	2.4	11	100	0	52	19	0	7	73	1.07
908564--908596	17	1.9	17	93	0	57	39	33	15	12	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
908742--908813	23	3.3	23	65	11	69	22	33	23	20	1.97
908736--908818	43	1.9	44	97	2	159	22	28	24	24	1.99
909400--909424	9	2.8	9	100	0	50	56	0	44	0	0.99
912484--912645	40	4.1	40	91	2	265	30	29	16	23	1.96
914527--914580	22	2.6	20	75	11	54	29	11	31	27	1.91
914472--914649	95	1.9	95	82	2	223	32	15	23	28	1.95
915054--915145	48	1.9	48	88	4	141	31	21	17	29	1.96
915102--915261	55	2.9	53	78	6	167	30	20	19	30	1.97
915131--915276	55	2.7	55	82	5	163	30	19	19	30	1.97
922131--922357	95	2.4	95	83	3	260	31	14	24	29	1.95
922691--923057	55	6.7	55	83	5	406	31	21	17	29	1.96
927423--927504	40	2.0	40	95	0	146	25	17	24	32	1.96
927609--927726	47	2.6	44	84	7	155	39	7	22	30	1.82
928123--928147	12	2.1	12	100	0	50	36	16	16	32	1.90
929147--929273	40	3.2	40	82	3	157	32	25	14	26	1.95
933527--933577	22	2.3	22	89	0	75	23	33	7	35	1.84
933856--933890	17	2.1	17	100	0	70	65	5	11	17	1.43
940221--940632	81	5.1	81	89	1	621	35	12	19	32	1.89
947208--947538	81	4.1	81	89	0	473	33	10	22	33	1.88
949014--949174	59	2.7	59	91	0	250	34	9	19	35	1.85
949392--949804	68	6.1	68	87	1	578	31	15	23	29	1.95
949736--950054	81	3.9	81	83	2	383	37	12	21	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953287--953330	3	14.3	3	80	4	52	61	0	0	38	0.96
953284--953330	13	3.8	13	80	8	62	61	0	0	38	0.96
957322--957363	19	2.2	19	83	8	50	28	11	30	28	1.92
957248--957468	95	2.3	95	80	6	236	33	17	21	27	1.96
957437--957485	22	2.2	22	100	0	98	38	14	18	28	1.90
957840--958000	59	2.7	59	85	4	218	33	8	20	37	1.83
958218--958592	68	5.5	68	92	0	617	29	14	25	30	1.95
958563--958739	81	2.2	81	88	0	255	36	14	24	24	1.93
959458--959581	48	2.6	47	81	9	144	29	20	7	42	1.79
963541--963603	26	2.3	29	76	13	71	6	19	3	71	1.21
963543--963626	33	2.5	33	83	12	93	5	19	2	72	1.16
963543--963622	15	4.9	15	72	23	56	6	17	2	73	1.15
963561--963611	21	2.5	22	84	12	72	3	19	3	72	1.16
963541--963624	27	3.1	25	74	19	71	5	19	2	72	1.16
963556--963644	19	4.7	19	75	17	53	5	19	2	73	1.14
963573--963635	21	3.1	21	82	13	62	6	17	1	74	1.10
963584--963647	19	3.4	19	79	14	71	6	20	1	71	1.15
964737--964761	6	4.2	6	100	0	50	32	36	16	16	1.90
965915--966036	46	2.6	47	82	7	149	29	20	7	42	1.79
972248--972299	20	2.7	20	93	3	88	44	17	15	23	1.86
972420--972491	22	3.5	20	72	9	56	29	16	25	29	1.97
972798--973049	56	4.5	56	92	0	407	36	12	18	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
976154--976349	56	3.5	56	88	0	277	36	12	16	35	1.86
976964--977012	25	2.0	25	83	0	62	10	28	36	24	1.88
986388--986444	28	2.0	28	89	0	87	29	17	7	45	1.75
986618--987234	45	13.7	45	86	1	765	23	21	13	41	1.88
992969--993041	25	3.0	25	90	4	105	6	12	39	41	1.69
1001923--1001950	8	3.5	8	100	0	56	39	0	10	50	1.37
1005435--1005522	10	8.8	10	80	18	64	77	0	11	11	1.00
1005468--1005522	22	2.6	23	81	16	66	80	0	5	14	0.89
1005459--1005523	10	6.6	10	80	18	66	78	0	6	15	0.94
1006520--1007060	55	9.9	55	87	3	718	31	15	24	28	1.96
1007906--1007947	21	2.0	21	86	13	61	69	16	14	0	1.20
1008395--1008448	25	2.2	25	89	0	81	11	12	37	38	1.79
1008401--1008467	25	2.8	25	90	4	102	8	10	38	41	1.71
1011217--1011439	45	5.0	44	80	4	223	22	19	14	43	1.86
1011244--1011451	90	2.3	89	85	4	274	22	19	13	44	1.86
1011385--1011501	62	1.9	62	89	1	182	23	21	11	44	1.84
1011340--1011545	106	1.9	107	84	4	274	21	21	12	44	1.85
1011295--1011599	151	2.0	151	86	2	425	21	21	12	43	1.86
1011446--1012270	45	18.3	45	85	0	966	23	21	12	41	1.88
1011254--1011816	180	2.9	197	78	11	531	22	21	13	42	1.87
1011204--1011695	241	2.0	241	82	4	607	23	20	12	43	1.86
1012690--1012889	95	2.1	95	85	1	267	27	23	9	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1014759--1014916	79	2.0	79	100	0	316	35	7	20	36	1.81
1015690--1015734	13	3.5	13	87	0	63	15	53	17	13	1.73
1017551--1017626	32	2.4	31	87	8	109	11	22	32	32	1.90
1019286--1019316	15	2.0	16	93	6	55	32	16	6	45	1.72
1019445--1019642	88	2.2	88	75	3	202	31	17	22	28	1.97
1026206--1026252	18	2.6	18	89	0	67	10	23	48	17	1.77
1031313--1031354	18	2.3	18	95	0	75	11	21	47	19	1.81
1033638--1033670	17	1.9	17	93	0	57	57	15	6	21	1.59
1033729--1033770	21	2.0	21	90	0	66	59	16	0	23	1.37
1033965--1034011	14	3.4	14	85	2	60	51	25	2	21	1.59

Tables:   1   2   3   4   5   6   7   8   9