genome.fa.s9330.2.7.7.80.10.50.1000.5.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: VEPZ01009330.1 Hibiscus syriacus cultivar Beakdansim tig00113096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1820295

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 950 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)
902144--902237	29	3.2	29	83	8	118	54	0	6	39	1.26
902205--902319	37	3.2	36	76	15	114	52	0	4	43	1.21
902367--902403	2	18.5	2	100	0	74	51	0	0	48	1.00
902393--902475	23	3.4	25	75	11	64	61	3	2	32	1.26
902405--902465	23	2.5	25	76	10	72	63	3	3	29	1.26
904678--904710	11	2.8	12	90	9	50	81	3	6	9	0.95
907625--907705	40	2.0	40	95	0	144	41	4	9	43	1.59
908875--908917	21	2.0	22	86	4	61	27	2	0	69	1.00
912624--912832	60	3.5	60	84	2	260	42	9	29	19	1.82
914225--914254	10	3.0	10	90	0	51	50	0	3	46	1.18
919803--919851	2	24.5	2	91	0	62	51	8	0	40	1.32
920924--920956	17	1.9	17	88	11	50	30	0	15	54	1.41
921617--921652	2	18.0	2	100	0	72	50	0	0	50	1.00
922476--922524	25	2.0	25	88	8	73	57	0	8	34	1.29
923360--923519	65	2.5	64	81	1	185	29	16	22	31	1.96
923530--923647	20	5.9	20	94	0	191	17	13	36	32	1.89
924812--924916	23	4.6	23	80	5	124	26	21	25	25	2.00
924812--924916	45	2.3	44	83	8	131	26	21	25	25	2.00
930736--930857	46	2.7	46	87	6	176	31	16	19	31	1.94
935665--935705	20	2.0	21	90	4	66	53	17	0	29	1.44
936446--936531	28	3.0	29	74	6	77	40	4	22	32	1.74
936493--936611	60	2.0	60	83	3	150	44	5	16	33	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
940545--940868	162	2.0	161	98	0	630	34	8	9	47	1.67
941750--941850	43	2.3	44	86	8	143	47	0	0	51	1.07
942755--942795	10	4.1	10	84	12	57	31	29	0	39	1.57
942919--943139	110	2.0	111	95	0	399	36	8	9	44	1.69
951609--951661	23	2.5	22	79	11	56	26	24	28	20	1.99
951620--951688	23	3.1	22	78	11	70	23	31	23	21	1.98
957637--957765	51	2.5	50	77	7	134	24	27	27	19	1.99
960115--960151	19	2.0	19	89	5	58	29	13	37	18	1.90
963359--963401	22	2.0	22	90	0	68	30	4	0	65	1.13
964757--965101	175	2.0	177	96	1	640	37	8	13	40	1.75
980206--980263	20	2.7	21	82	15	57	34	20	20	24	1.97
981118--981156	21	1.9	21	94	5	71	15	20	30	33	1.94
990052--990090	20	2.0	20	94	0	69	35	23	10	30	1.88
991327--991374	22	2.2	22	100	0	96	50	4	29	16	1.64
991967--992007	21	2.0	21	95	0	73	53	14	4	26	1.61
992446--992533	44	2.0	42	91	4	140	53	15	9	21	1.70
994928--994962	17	2.1	17	94	0	61	34	20	5	40	1.76
996419--996461	22	2.0	20	86	8	59	34	23	25	16	1.95
996422--996479	29	2.0	29	96	0	107	32	24	25	17	1.96
999021--999094	29	2.5	30	80	10	82	36	20	18	24	1.95
1001042--1001078	10	3.8	10	85	7	58	18	0	0	81	0.70
1001204--1001230	4	6.8	4	100	0	54	22	0	0	77	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1001536--1001591	2	28.0	2	100	0	112	50	0	0	50	1.00
1002279--1002315	18	2.0	20	89	10	60	54	16	0	29	1.43
1003074--1003143	23	3.0	23	85	2	86	27	27	25	20	1.99
1003353--1003421	30	2.3	30	92	0	111	33	23	4	39	1.74
1010014--1010082	23	3.0	23	84	0	84	27	24	26	21	1.99
1010290--1010360	30	2.4	30	90	0	106	32	22	7	38	1.81
1018914--1018979	33	2.0	33	96	0	123	34	9	16	39	1.80
1025902--1026014	59	1.9	59	83	8	149	36	18	15	30	1.91
1028728--1028774	15	3.1	15	75	9	51	29	0	6	63	1.19
1030971--1031036	26	2.5	28	79	16	70	43	4	1	50	1.32
1039214--1039253	21	1.9	21	90	10	64	55	5	7	32	1.50
1043520--1043554	18	1.9	18	88	11	54	22	0	8	68	1.16
1045072--1045114	20	2.2	20	95	0	77	32	6	9	51	1.61
1045291--1045319	13	2.3	13	94	5	51	44	6	3	44	1.47
1047154--1047606	228	2.0	227	89	3	687	31	16	17	33	1.93
1052565--1052636	20	3.6	20	90	7	103	37	0	25	37	1.56
1054053--1054197	61	2.3	62	80	5	157	29	14	25	30	1.95
1063134--1063208	2	37.5	2	100	0	150	50	0	0	49	1.00
1067462--1067607	60	2.5	59	82	2	168	30	20	5	43	1.75
1067747--1067839	29	3.1	29	70	11	80	41	6	20	31	1.77
1067731--1067870	60	2.3	60	84	7	169	41	5	20	32	1.74
1068125--1068221	47	2.1	47	100	0	194	39	10	6	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073735--1073772	2	19.0	2	100	0	76	50	0	0	50	1.00
1079903--1079952	22	2.3	21	80	10	57	54	0	12	34	1.38
1084028--1084091	26	2.5	26	80	10	76	35	15	1	46	1.56
1085111--1085209	51	1.9	51	81	4	119	21	35	6	37	1.78
1090335--1090488	51	3.0	51	92	0	236	23	35	5	36	1.77
1093812--1093851	16	2.6	16	88	11	57	47	2	0	50	1.14
1096669--1096700	2	16.0	2	100	0	64	50	0	0	50	1.00
1097464--1097643	83	2.2	83	97	1	342	57	2	12	27	1.48
1098034--1098061	2	14.0	2	100	0	56	50	0	0	50	1.00
1098254--1098294	16	2.6	16	100	0	82	53	0	4	41	1.22
1098735--1098784	23	2.1	23	85	3	64	40	2	6	52	1.38
1098817--1098855	16	2.4	16	91	0	60	30	17	17	33	1.94
1099230--1099271	2	21.0	2	100	0	84	50	0	0	50	1.00
1099367--1099481	2	58.5	2	96	3	216	50	0	0	49	1.00
1099829--1099886	7	8.3	7	71	21	50	43	0	1	55	1.10
1099829--1099880	18	2.8	19	77	11	54	42	0	1	55	1.10
1102586--1102626	21	1.9	22	90	5	66	41	19	17	21	1.90
1102856--1102895	3	13.0	3	84	5	53	32	5	0	62	1.17
1102859--1102895	19	1.9	19	88	0	56	32	5	0	62	1.18
1102864--1102894	16	1.9	16	93	0	53	32	3	0	64	1.09
1109261--1109332	33	2.2	33	85	2	92	26	29	12	31	1.93
1109888--1110000	6	18.2	6	76	19	90	76	2	18	1	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109897--1110003	13	7.7	14	73	22	84	75	2	19	1	1.02
1109888--1110008	32	3.6	33	76	11	104	76	3	18	2	1.04
1112110--1112837	259	2.8	259	87	0	1064	32	14	17	35	1.90
1112636--1112732	42	2.3	41	82	1	122	21	23	21	32	1.98
1116121--1116165	22	2.0	22	82	0	54	28	2	13	55	1.50
1116785--1116815	15	2.0	16	93	6	55	32	25	25	16	1.96
1122871--1122952	42	2.0	41	82	2	101	23	18	20	37	1.94
1122885--1123864	239	4.0	239	76	12	997	32	15	16	35	1.90
1123373--1123451	42	1.9	41	84	7	106	26	18	21	32	1.97
1123863--1123942	42	1.9	42	82	5	99	22	18	20	38	1.93
1123465--1123974	259	2.0	254	88	2	761	30	15	17	36	1.91
1123954--1124015	20	3.1	20	95	0	106	25	29	19	25	1.99
1128850--1128875	6	4.3	6	100	0	52	0	34	15	50	1.45
1130511--1130645	58	2.3	58	80	12	141	41	9	10	38	1.72
1130979--1131034	28	2.0	29	86	10	80	35	17	17	28	1.93
1131750--1131844	50	1.9	50	89	4	147	41	4	10	44	1.58
1141925--1141955	16	1.9	16	100	0	62	51	19	9	19	1.74
1143105--1143754	182	3.6	181	88	1	874	42	12	17	27	1.84
1145241--1146249	201	5.0	199	80	6	1158	37	16	14	30	1.89
1146006--1146051	21	2.1	21	84	4	56	30	15	10	43	1.81
1149312--1149504	106	1.8	107	85	1	271	40	12	16	30	1.85
1149412--1149888	197	2.4	197	81	4	541	38	13	15	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149934--1149985	23	2.3	23	89	0	77	30	23	7	38	1.83
1152029--1152062	16	2.2	15	89	5	50	41	0	0	58	0.98
1152491--1152532	15	2.6	16	82	17	52	33	4	0	61	1.17
1163429--1163489	20	2.9	21	69	14	54	24	19	21	34	1.96
1163431--1163531	42	2.4	41	90	4	150	24	21	21	31	1.98
1163061--1163726	261	2.6	253	87	5	941	34	15	16	33	1.91
1163061--1163726	250	2.6	249	86	5	931	34	15	16	33	1.91
1163787--1163867	42	2.0	41	87	2	117	23	19	23	33	1.97
1163787--1164406	260	2.4	249	87	3	857	30	16	17	35	1.92
1164403--1164495	40	2.4	40	85	10	131	27	10	15	46	1.79

Tables:   1   2   3   4   5   6   7   8