genome.fa.s8071.2.7.7.80.10.50.1000.5.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: VEPZ01008071.1 Hibiscus syriacus cultivar Beakdansim tig00110569_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1969971

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 922 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)
920600--920624	12	2.1	12	100	0	50	72	0	28	0	0.86
922917--923047	19	7.7	19	65	23	85	43	19	22	14	1.87
922917--923043	33	3.8	33	87	4	193	43	19	22	14	1.88
922918--923050	66	2.0	66	95	0	239	42	19	21	16	1.89
923206--923242	14	2.6	14	91	0	65	45	24	0	29	1.53
924638--924721	42	2.0	42	83	0	105	23	16	39	20	1.92
926721--926781	20	3.1	19	79	9	68	44	18	24	13	1.85
926746--926842	33	2.9	33	89	1	140	40	24	23	11	1.88
926843--926923	19	4.5	19	73	16	64	12	17	23	46	1.81
927439--927491	20	2.7	20	93	0	88	26	20	28	24	1.99
927460--927554	41	2.3	41	80	3	102	21	20	23	35	1.96
928884--928943	2	30.0	2	100	0	120	50	0	0	50	1.00
931094--931120	2	13.5	2	100	0	54	48	0	0	51	1.00
941009--941046	3	12.7	3	100	0	76	65	0	0	34	0.93
942028--942063	3	11.7	3	94	5	63	66	0	0	33	0.92
945985--946034	14	3.6	14	79	12	59	46	32	0	22	1.52
946994--947046	23	2.4	21	79	11	61	20	33	24	20	1.97
947008--947053	23	2.0	23	95	0	83	19	34	28	17	1.94
956501--956547	23	2.0	23	100	0	94	31	25	25	17	1.97
960815--960942	42	3.3	41	66	18	110	14	32	41	10	1.81
960838--960954	36	3.2	36	65	20	87	14	29	44	11	1.81
960948--961068	51	2.5	47	78	7	129	15	22	47	14	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
960948--961053	51	2.1	51	89	0	158	16	16	51	15	1.76
960990--961089	45	2.2	45	83	3	121	18	18	49	15	1.81
966453--966567	60	1.9	60	83	0	149	34	14	6	43	1.73
970747--970782	2	18.0	2	100	0	72	50	0	0	50	1.00
970973--971112	60	2.3	60	78	8	149	32	24	3	40	1.72
971232--971404	60	2.9	58	74	10	145	41	4	22	32	1.73
993952--994012	30	2.0	30	90	0	95	52	27	16	3	1.59
998876--998909	16	2.1	16	100	0	68	58	5	23	11	1.55
999951--999990	20	2.0	20	85	0	53	27	27	17	27	1.98
1000068--1000165	21	4.7	21	69	2	72	34	17	19	28	1.94
1000907--1000949	21	2.0	21	90	0	68	32	27	23	16	1.96
1000977--1001014	20	1.9	20	88	0	58	23	34	31	10	1.89
1001484--1001701	103	2.1	103	94	0	382	25	12	24	37	1.91
1001718--1001785	23	3.0	23	82	4	84	23	25	26	25	2.00
1020971--1021024	20	2.7	19	75	8	54	37	7	0	55	1.28
1027127--1027165	2	19.5	2	83	0	51	48	5	2	43	1.38
1029036--1029879	105	8.0	105	94	0	1474	22	18	26	32	1.97
1028981--1029886	421	2.2	415	91	4	1497	22	18	26	32	1.97
1041707--1041831	63	2.0	63	88	1	189	35	17	22	24	1.95
1046939--1046963	12	2.1	12	100	0	50	36	0	16	48	1.46
1047139--1047178	2	20.0	2	100	0	80	50	0	0	50	1.00
1047472--1047518	16	3.1	16	73	17	55	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052304--1052339	5	7.2	5	93	0	54	75	0	25	0	0.81
1076000--1076065	28	2.5	26	76	9	71	56	10	6	27	1.57
1079959--1080003	23	2.0	23	86	4	65	51	8	8	31	1.64
1081554--1081614	21	3.2	21	65	29	64	31	4	21	42	1.74
1081546--1081665	35	3.3	36	88	6	172	32	5	19	43	1.72
1082072--1082105	16	2.1	16	88	0	50	29	8	29	32	1.87
1084125--1084188	21	3.4	20	66	29	59	31	4	18	45	1.70
1084117--1084238	35	3.4	36	87	6	176	32	4	18	43	1.72
1090915--1090942	2	14.0	2	100	0	56	50	0	50	0	1.00
1095073--1095132	31	1.9	31	82	0	75	55	6	5	33	1.48
1098975--1099007	17	1.9	17	88	11	50	63	0	3	33	1.10
1099125--1099187	32	1.9	32	84	9	83	60	6	0	33	1.22
1101107--1101176	31	2.3	31	82	5	79	42	7	7	42	1.59
1102405--1102460	21	2.6	21	82	2	58	39	5	0	55	1.23
1102586--1102620	16	2.2	16	94	0	61	14	5	14	65	1.44
1105941--1106032	49	1.9	47	86	4	130	36	16	19	27	1.93
1109474--1109534	29	2.1	29	87	0	86	21	32	29	16	1.95
1109610--1109683	25	3.2	25	64	25	70	18	17	41	21	1.90
1109620--1109694	20	3.5	20	67	22	62	18	18	40	22	1.92
1109612--1109701	45	2.0	45	100	0	180	20	20	37	22	1.94
1110185--1110228	21	2.1	21	91	0	70	29	0	15	54	1.42
1110205--1110267	28	2.2	30	91	5	103	31	0	11	57	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110766--1110810	21	2.2	21	84	4	56	35	0	8	55	1.31
1111071--1111129	26	2.3	25	75	18	66	47	8	3	40	1.51
1114015--1114242	26	9.2	26	75	12	183	43	2	8	46	1.46
1114093--1114147	16	3.0	20	75	22	66	41	0	10	47	1.39
1114095--1114150	19	3.1	19	73	21	66	39	0	12	48	1.41
1113957--1114226	124	2.2	123	91	2	436	43	1	8	45	1.46
1114172--1114264	38	2.5	37	81	8	102	43	2	4	50	1.34
1114015--1114264	49	5.0	48	75	11	138	44	2	7	46	1.45
1114015--1114242	14	17.1	14	71	17	114	43	2	8	46	1.46
1114359--1114391	17	1.9	17	93	0	57	36	6	12	45	1.66
1115515--1115548	14	2.4	14	90	0	50	50	0	0	50	1.00
1116542--1116572	15	2.1	14	94	5	53	54	6	0	38	1.26
1116547--1116593	16	3.0	16	84	9	53	59	10	0	29	1.31
1116634--1116715	34	2.5	34	83	13	93	48	13	0	37	1.42
1116756--1116847	46	2.0	48	87	8	136	46	11	0	41	1.41
1116756--1116860	47	2.2	48	85	10	135	47	12	0	40	1.41
1116828--1116916	41	2.2	40	78	8	90	46	10	1	42	1.45
1117051--1117103	21	2.5	21	96	0	97	1	35	0	62	1.06
1117074--1117105	17	1.9	16	93	6	55	0	37	0	62	0.95
1117108--1117153	23	2.0	23	100	0	92	8	39	4	47	1.54
1117265--1117317	27	2.0	27	100	0	106	26	20	22	30	1.98
1117395--1117529	29	4.7	29	96	1	236	22	31	31	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1117528--1117670	70	2.0	70	97	0	268	11	32	20	34	1.89
1117630--1117694	11	6.1	11	69	25	50	15	23	24	36	1.93
1117609--1117692	42	2.0	42	95	0	150	13	27	25	34	1.93
1117688--1117722	13	2.8	13	86	4	54	17	37	17	28	1.92
1118266--1118292	3	9.0	3	100	0	54	66	0	0	33	0.92
1120456--1120511	14	4.3	14	73	17	66	8	14	26	50	1.72
1120457--1120531	24	3.1	24	86	0	105	12	12	22	53	1.70
1121616--1121671	16	3.5	16	87	0	85	12	12	19	55	1.68
1121736--1121766	16	1.9	16	100	0	62	6	12	22	58	1.58
1129758--1129831	14	5.4	13	74	19	53	52	1	0	45	1.09
1130206--1130261	13	3.9	13	75	20	58	30	0	5	64	1.16
1130206--1130273	31	2.2	31	92	2	111	29	0	4	66	1.11
1130205--1130273	15	4.7	15	72	13	63	30	0	4	65	1.12
1130205--1130281	31	2.6	28	72	18	66	28	0	3	67	1.08
1130700--1130791	33	2.8	33	83	6	123	26	0	27	46	1.53
1138687--1138799	60	1.9	60	88	0	172	35	17	10	36	1.85
1144316--1144346	2	15.5	2	100	0	62	0	48	0	51	1.00
1145515--1145584	37	1.9	37	91	2	115	47	0	4	48	1.21
1148594--1148776	97	1.9	96	82	7	226	50	5	8	36	1.55
1150574--1150614	3	13.7	3	89	0	64	29	2	2	65	1.18
1151927--1151982	3	18.0	3	92	7	94	33	1	0	64	1.04
1153309--1153336	14	2.0	14	100	0	56	28	14	7	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155398--1155486	3	29.7	3	97	0	169	32	1	0	66	0.99
1157435--1157459	4	6.2	4	100	0	50	76	0	24	0	0.80
1165112--1165167	26	2.1	28	83	12	73	50	1	0	48	1.11
1165447--1165496	26	1.9	26	84	8	66	48	2	4	46	1.32
1166273--1166309	2	18.5	2	100	0	74	48	0	0	51	1.00
1174864--1174908	23	2.0	23	90	0	72	42	8	15	33	1.78
1175022--1175068	23	2.0	23	87	0	67	38	10	19	31	1.86
1174838--1175333	158	3.2	157	88	3	718	41	12	12	33	1.80
1175420--1175668	73	3.4	74	92	2	394	40	16	10	32	1.83
1175749--1176319	112	5.1	112	90	2	874	44	12	12	30	1.79

Tables:   1   2   3   4   5   6   7   8