genome.fa.s9603.2.7.7.80.10.50.1000.5.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: VEPZ01009603.1 Hibiscus syriacus cultivar Beakdansim tig00116983_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1462390

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 823 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)
877433--877494	21	3.0	21	80	0	70	56	17	4	20	1.59
882681--882766	25	3.4	25	95	0	136	40	4	41	12	1.64
882945--883109	81	2.0	83	84	2	217	33	18	15	31	1.93
882989--883160	41	4.2	41	76	10	172	32	18	18	30	1.95
890849--890907	30	1.9	30	83	10	75	23	11	27	37	1.90
891596--891761	60	2.8	60	81	8	187	33	19	5	42	1.74
893858--893916	11	5.5	11	76	6	50	22	8	5	64	1.41
893974--894017	20	2.2	20	84	8	54	70	2	6	20	1.21
895266--895637	111	3.3	111	92	1	602	31	12	11	44	1.77
894941--896440	804	1.9	803	94	1	2646	36	9	10	42	1.73
896070--896550	111	4.3	111	90	1	678	33	12	10	44	1.76
895266--897278	914	2.2	885	89	3	3059	35	10	10	42	1.74
896988--897276	111	2.6	111	87	2	402	33	10	8	47	1.68
897288--897421	23	5.8	23	84	0	151	38	18	7	35	1.79
897288--897421	46	2.9	46	85	0	169	38	18	7	35	1.79
897287--897430	69	2.1	69	86	0	198	37	17	7	37	1.78
897458--897517	23	2.6	23	83	0	75	35	15	6	43	1.72
897804--897837	17	2.0	18	88	11	54	47	17	17	17	1.84
905758--905800	3	14.3	3	85	9	52	41	0	0	58	0.98
905758--905801	12	3.7	12	84	0	61	43	0	0	56	0.99
907364--907576	30	7.1	30	81	4	198	19	13	7	59	1.57
907368--907576	60	3.5	60	80	4	226	19	13	7	59	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
919527--919566	21	1.9	21	89	0	62	25	40	25	10	1.86
920727--920764	20	1.9	20	94	0	67	26	31	26	15	1.96
924159--924329	63	2.7	64	77	9	197	31	12	15	40	1.84
924556--925070	132	3.9	131	79	3	469	26	31	15	26	1.96
924751--924861	43	2.7	41	83	12	138	24	31	18	26	1.97
925024--925125	40	2.5	40	79	0	123	24	30	16	28	1.97
925043--925107	20	3.2	21	66	16	55	26	38	9	26	1.86
925329--925376	3	16.3	3	81	12	55	35	2	2	60	1.20
926835--926902	35	2.0	34	86	13	95	23	8	13	54	1.66
926944--927181	30	8.0	29	77	8	219	20	14	7	57	1.61
926944--927195	89	2.8	89	79	6	260	21	13	7	57	1.62
926944--927181	60	4.0	59	80	5	257	20	14	7	57	1.61
929572--929599	3	9.3	3	100	0	56	67	32	0	0	0.91
929622--929655	16	2.1	16	100	0	68	23	0	64	11	1.26
938089--938213	53	2.4	53	81	6	137	42	18	6	32	1.76
938115--938226	53	2.1	53	85	3	145	41	19	7	32	1.79
938230--938280	2	25.5	2	91	0	75	47	0	0	52	1.00
941274--941323	26	1.9	26	91	0	82	18	8	4	70	1.28
942489--942556	34	2.0	34	94	0	118	25	8	7	58	1.54
943336--943392	20	2.8	20	86	0	87	36	7	28	28	1.83
944566--944663	21	4.7	21	78	2	108	25	16	24	33	1.96
944654--944765	22	5.3	22	71	8	81	19	18	23	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
944673--944721	19	2.5	20	93	6	91	18	20	18	42	1.89
944612--944780	83	2.0	81	84	11	220	20	18	22	38	1.93
945480--945532	22	2.4	22	93	0	97	37	28	16	16	1.91
945521--945638	21	5.7	21	78	7	116	35	27	18	18	1.94
945545--945596	20	2.6	20	90	0	77	44	25	25	5	1.76
949872--949913	22	1.9	22	95	0	75	23	35	14	26	1.93
952467--952585	21	5.7	21	81	7	134	21	36	18	23	1.95
952467--952585	42	2.8	42	89	0	175	21	36	18	23	1.95
953890--954047	64	2.5	64	96	1	289	29	1	17	50	1.57
954149--954199	19	2.6	20	90	3	77	37	23	17	21	1.94
954195--954230	14	2.6	15	83	16	51	5	19	27	47	1.72
954266--954309	20	2.2	20	91	0	70	15	20	22	40	1.90
954555--954590	18	2.0	18	94	0	63	19	2	22	55	1.56
956862--956913	24	2.2	24	82	0	59	38	19	17	25	1.93
957639--957676	16	2.5	15	84	12	51	65	0	2	31	1.06
957913--958001	41	2.2	41	89	4	135	21	17	21	39	1.93
957913--958001	20	4.3	21	95	1	137	21	17	21	39	1.93
960072--960110	2	19.5	2	83	0	51	48	5	2	43	1.38
960615--960740	63	2.0	63	90	0	198	35	17	22	24	1.95
962005--962741	105	7.0	105	98	0	1395	23	17	25	33	1.96
963532--963565	1	34.0	1	93	0	59	0	2	0	97	0.19
970629--970674	22	2.0	23	88	12	69	67	6	6	19	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974472--974592	60	2.0	61	83	4	156	35	18	22	23	1.95
977137--977210	29	2.6	30	87	8	109	33	10	35	20	1.87
977608--977728	61	2.0	60	95	4	219	42	19	9	28	1.83
979631--979677	25	1.9	25	83	12	62	59	2	2	36	1.21
983434--983774	169	2.0	169	98	1	659	42	7	9	41	1.65
1001452--1001494	6	7.0	6	80	15	52	79	0	16	4	0.90
1001452--1001494	11	3.5	12	84	12	52	79	0	16	4	0.90
1001444--1001480	17	2.2	16	90	4	56	81	0	18	0	0.70
1001840--1001876	18	2.1	18	89	0	56	27	16	5	51	1.66
1002409--1002482	16	4.6	16	84	3	96	50	14	17	17	1.79
1002394--1002482	32	2.8	32	89	3	135	48	13	19	19	1.81
1004804--1005147	137	2.5	136	86	4	451	23	14	27	35	1.93
1005576--1005714	73	1.9	74	80	7	167	38	12	15	33	1.86
1011464--1011522	23	2.6	23	86	0	82	32	25	23	18	1.97
1013072--1013109	19	2.0	19	94	0	67	28	21	18	31	1.97
1016407--1016478	23	3.2	23	84	3	103	34	22	22	20	1.97
1018005--1018141	64	2.2	63	81	6	152	25	24	17	32	1.97
1021390--1021446	23	2.5	23	91	0	87	31	26	24	17	1.97
1021447--1021499	23	2.4	21	76	14	52	43	20	9	26	1.82
1026659--1026708	21	2.4	21	86	3	66	12	20	18	50	1.78
1026853--1026890	20	1.9	20	94	0	67	10	0	26	63	1.27
1027257--1027304	3	16.0	3	84	0	51	60	0	6	33	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027632--1027656	9	2.8	9	100	0	50	44	0	0	56	0.99
1028385--1028735	54	6.5	54	86	0	387	33	19	17	30	1.94
1028410--1028735	108	3.0	108	85	0	472	34	18	16	30	1.94
1028416--1028733	162	2.0	162	91	0	510	34	18	16	30	1.93
1029044--1029094	22	2.4	21	83	6	59	29	21	15	33	1.94
1033005--1033029	2	12.5	2	100	0	50	48	0	0	52	1.00
1033415--1033749	169	2.0	169	87	1	483	36	8	14	41	1.75
1039693--1039768	37	2.1	36	85	4	100	38	14	18	28	1.90
1044995--1045107	60	1.9	60	87	3	165	38	14	12	34	1.83
1044995--1045127	60	2.2	60	84	5	162	36	14	14	35	1.86
1047476--1047523	23	2.1	22	85	11	62	47	2	0	50	1.12
1048083--1048132	17	2.9	17	87	3	64	42	6	6	46	1.53
1049587--1049711	31	4.0	31	90	2	180	21	18	21	38	1.93
1051166--1051205	17	2.3	17	95	4	71	20	22	22	35	1.96
1051643--1051685	20	2.2	20	87	4	61	55	4	2	37	1.33
1057611--1057846	117	2.0	117	84	5	309	32	12	6	49	1.65
1059543--1059647	50	2.1	49	94	1	183	41	5	10	41	1.63
1059701--1059921	12	19.8	12	67	24	69	45	5	3	45	1.42
1059663--1059821	14	12.5	13	68	25	58	46	5	3	44	1.45
1059685--1059751	31	2.2	29	82	10	82	47	5	4	41	1.48
1059786--1059926	2	73.5	2	73	18	86	45	4	2	47	1.36
1059763--1059821	25	2.5	24	81	15	70	47	5	0	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060879--1060925	22	2.1	23	92	4	78	36	8	17	38	1.80
1061363--1061810	182	2.5	182	92	1	740	28	16	12	43	1.84
1061683--1062142	112	4.1	112	92	1	755	25	15	14	44	1.84
1066896--1066921	2	13.0	2	100	0	52	50	0	0	50	1.00
1070262--1070301	3	13.3	3	100	0	80	67	0	0	32	0.91
1080364--1080413	22	2.2	24	86	10	70	64	10	2	24	1.35
1080429--1080468	6	6.7	6	100	0	80	50	15	0	35	1.44
1093845--1093950	45	2.4	44	90	4	160	36	10	25	27	1.88
1096445--1096577	70	1.9	70	93	0	230	12	16	18	52	1.74
1102988--1103058	18	3.9	18	96	0	124	26	30	22	19	1.98

Tables:   1   2   3   4   5   6   7