genome.fa.s1523.2.7.7.80.10.50.1000.5.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: VEPZ01001523.1 Hibiscus syriacus cultivar Beakdansim tig00002982_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1321709

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 665 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)
935043--935808	113	6.8	113	90	2	1074	38	13	18	28	1.90
935870--935928	17	3.4	17	68	25	50	47	11	25	15	1.79
936166--936236	9	7.5	10	75	17	55	36	0	0	63	0.95
936178--936237	3	20.0	3	88	6	77	40	0	0	60	0.97
937505--937561	3	19.3	3	77	10	55	26	1	1	70	1.07
937486--937561	39	1.9	39	86	5	109	27	3	2	65	1.23
937505--937561	27	2.1	27	90	3	89	26	1	1	70	1.07
939736--939778	19	2.2	20	88	8	63	60	2	0	37	1.10
941834--942198	131	2.8	130	82	2	444	33	12	15	38	1.85
944106--944139	11	3.1	11	91	0	59	26	23	8	41	1.83
949262--949315	7	8.0	7	79	8	58	74	0	14	11	1.08
949280--949337	19	3.4	19	71	28	67	72	0	18	8	1.10
949273--949332	26	2.3	26	86	11	79	75	0	16	8	1.04
950573--950892	134	2.4	134	83	0	379	31	22	13	32	1.92
951052--951151	3	33.7	3	82	9	62	30	1	6	63	1.25
951054--951098	19	2.4	19	80	0	54	42	0	0	57	0.98
953246--953607	130	2.8	130	81	5	394	32	11	16	39	1.84
956091--956132	21	2.0	22	85	4	59	16	7	16	59	1.58
956717--956844	39	3.3	38	78	4	139	17	25	25	31	1.97
963618--963732	51	2.3	51	87	3	160	35	5	10	48	1.60
966760--966808	19	2.6	19	84	9	57	24	28	20	26	1.99
975378--975477	46	2.2	46	82	7	114	32	21	19	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
975453--975495	19	2.4	19	84	7	54	23	27	20	27	1.99
981796--981866	17	4.1	17	81	5	72	36	12	9	40	1.77
985343--985431	17	5.2	17	86	2	106	40	7	14	37	1.75
986377--986413	17	2.2	17	95	0	65	43	5	13	37	1.67
990222--990252	14	2.2	14	100	0	62	41	19	12	25	1.87
991161--991242	40	2.0	40	95	0	146	24	15	25	34	1.95
991346--991456	44	2.4	47	85	5	147	40	8	19	31	1.81
991346--991472	48	2.8	45	84	7	166	40	7	22	30	1.80
992678--992717	17	2.4	17	100	0	80	32	12	22	32	1.91
993438--993506	17	4.0	17	79	5	59	36	5	10	47	1.61
993438--993482	18	2.6	18	86	10	58	33	0	13	53	1.40
996904--997034	17	7.7	17	77	6	122	39	9	14	36	1.78
996903--997051	34	4.4	34	73	13	101	39	9	14	36	1.78
997029--997103	34	2.2	34	81	9	82	44	10	16	29	1.81
1000369--1000446	17	4.5	17	75	3	66	39	10	14	35	1.80
1002947--1002975	14	2.1	14	100	0	58	48	6	6	37	1.57
1002944--1003007	17	3.9	17	76	12	71	43	6	14	35	1.70
1005938--1006009	17	4.2	18	75	5	60	38	8	13	38	1.75
1012622--1012697	40	1.9	40	91	0	125	35	27	18	18	1.94
1013170--1013241	36	1.9	39	86	8	105	33	16	9	40	1.81
1013172--1013252	36	2.2	37	82	10	94	34	18	11	35	1.86
1015123--1015250	42	3.0	43	81	5	150	24	9	27	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015127--1015244	45	2.7	43	84	3	139	24	10	27	37	1.88
1017507--1017551	2	22.5	2	100	0	90	48	0	0	51	1.00
1021593--1021638	22	2.1	22	84	8	58	19	10	10	58	1.61
1021942--1022012	34	2.0	34	83	5	88	22	9	2	64	1.36
1024000--1024087	43	2.0	43	95	0	158	31	23	25	19	1.98
1025055--1025112	12	4.6	12	79	14	55	79	5	13	1	0.98
1025057--1025112	19	2.9	18	73	19	51	78	5	14	1	1.00
1026213--1026279	31	2.1	32	88	2	100	26	16	25	31	1.96
1026941--1027116	65	2.8	61	80	8	201	40	19	13	26	1.88
1027244--1027651	85	4.8	85	83	3	446	36	20	16	26	1.94
1027244--1027651	170	2.4	170	83	3	493	36	20	16	26	1.94
1029257--1029301	11	4.0	11	80	13	56	17	2	2	77	0.97
1029258--1029301	18	2.6	16	83	13	61	18	2	2	77	0.98
1029524--1029605	30	2.7	31	74	7	80	21	15	7	54	1.65
1029673--1029733	17	3.6	17	80	6	70	16	4	1	77	1.03
1029697--1029731	8	4.1	8	89	10	52	17	2	0	80	0.84
1031787--1031856	29	2.3	31	82	4	90	30	15	5	48	1.68
1032221--1032322	33	3.1	33	94	0	177	20	22	7	49	1.75
1033254--1033279	13	2.0	13	100	0	52	30	7	23	38	1.83
1037135--1037212	31	2.5	31	82	0	102	37	5	2	55	1.36
1043392--1043440	22	2.3	21	82	3	53	61	8	0	30	1.25
1045211--1045317	4	26.8	4	100	0	214	25	0	24	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051174--1051388	83	2.5	84	80	8	222	36	16	17	30	1.92
1050848--1051395	85	6.5	85	74	6	369	33	17	19	28	1.95
1052765--1052812	23	2.0	23	84	4	60	20	4	8	66	1.35
1055681--1055716	12	3.0	12	91	0	54	36	2	0	61	1.11
1055893--1055934	22	2.0	22	85	4	59	19	9	4	66	1.38
1060792--1060849	27	2.1	27	93	0	98	27	15	13	43	1.85
1065113--1065176	25	2.5	25	82	2	65	37	15	20	26	1.92
1068443--1068475	9	3.7	9	95	0	57	75	9	0	15	1.03
1071952--1072129	81	2.2	81	88	0	266	32	19	9	39	1.84
1071952--1072163	81	2.6	81	83	0	226	31	18	10	39	1.85
1073360--1073392	14	2.3	15	89	5	50	0	42	0	57	0.98
1073359--1073393	15	2.3	15	85	0	52	0	40	0	60	0.97
1074926--1074964	12	3.2	12	81	3	51	25	17	10	46	1.80
1077374--1077653	125	2.2	125	82	3	332	34	16	20	28	1.95
1077441--1077931	85	5.8	84	69	12	304	32	16	20	30	1.95
1077346--1077600	40	6.2	40	72	7	136	33	16	21	28	1.95
1077588--1077683	45	2.1	44	85	11	124	35	19	19	25	1.96
1081299--1081376	39	2.0	39	92	5	131	25	16	6	51	1.68
1083687--1083735	21	2.4	21	83	6	57	24	4	0	71	1.03
1083687--1083735	19	2.5	20	86	6	64	24	4	0	71	1.03
1085298--1085348	19	2.7	18	82	8	66	23	3	1	70	1.14
1096435--1096537	48	2.2	48	82	5	120	32	23	13	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108363--1108402	19	2.1	19	90	0	62	55	15	10	20	1.68
1108363--1108418	19	2.9	19	83	0	58	51	16	10	21	1.74
1113143--1113184	20	2.0	21	90	4	68	76	4	4	14	1.12
1114637--1114683	21	2.2	21	88	0	67	17	23	21	38	1.93
1116127--1116165	21	1.9	20	89	5	60	79	0	0	20	0.73
1119079--1119316	131	1.8	131	80	7	286	32	15	17	33	1.92
1131245--1131291	23	2.0	23	84	8	60	51	8	6	34	1.58
1131518--1131557	21	1.9	21	85	10	55	22	15	17	45	1.85
1134721--1134748	7	4.0	7	100	0	56	85	0	0	14	0.59
1136193--1136332	42	3.3	41	75	4	136	22	20	27	28	1.99
1136134--1136420	85	3.4	85	82	2	353	27	20	21	30	1.98
1136792--1136826	12	3.0	12	87	4	54	0	31	11	57	1.34
1141535--1141617	35	2.4	34	86	5	123	53	22	2	21	1.58
1141759--1142228	235	2.0	235	99	0	931	29	15	17	37	1.90
1142325--1142596	49	5.5	49	71	13	171	32	13	16	37	1.87
1142363--1142596	99	2.4	99	86	0	306	33	13	15	37	1.87
1142213--1142568	148	2.4	149	77	8	382	33	13	15	37	1.87
1144231--1144262	9	3.4	9	95	4	55	40	0	0	59	0.97
1152402--1152443	18	2.4	17	81	18	50	16	9	4	69	1.33
1152676--1152714	18	2.2	18	86	9	53	30	2	0	66	1.05
1152528--1152787	143	1.8	143	86	10	379	38	5	7	49	1.53
1155703--1155766	20	3.3	19	82	2	65	18	7	4	68	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155718--1155765	13	3.8	13	83	10	64	18	8	0	72	1.08
1158872--1159019	76	2.0	75	89	4	226	29	2	9	58	1.44
1159677--1159717	21	1.9	22	90	5	66	19	4	0	75	0.98
1159753--1159783	16	1.9	16	93	0	53	35	3	0	61	1.12
1165380--1165440	19	3.1	20	81	9	81	11	1	3	83	0.83
1165375--1165437	29	2.1	31	88	5	94	11	3	4	80	0.97
1165383--1165448	20	3.3	20	89	6	100	12	1	3	83	0.83
1167262--1167426	76	2.2	75	87	3	242	30	2	10	56	1.47
1167290--1167438	75	2.0	76	90	4	239	28	2	10	59	1.42
1168075--1168123	22	2.2	23	88	3	73	20	4	0	75	0.96

Tables:   1   2   3   4   5   6