genome.fa.s8620.2.7.7.80.10.50.1000.5.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  5  of  64  ( 7674 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)
993767--993803	7	5.4	7	93	6	67	24	29	29	16	1.96
993767--993803	13	2.7	14	91	8	67	24	29	29	16	1.96
993800--993846	5	9.8	5	77	9	53	4	19	53	23	1.63
993806--993840	9	3.8	9	85	7	52	5	20	51	22	1.68
993800--993846	19	2.5	19	96	0	85	4	19	53	23	1.63
993801--993827	14	1.9	14	100	0	54	3	22	51	22	1.63
993845--993884	19	2.1	19	90	9	64	27	32	20	20	1.97
1001014--1001043	13	2.2	14	94	5	53	23	30	30	16	1.96
1001014--1001043	7	4.4	7	91	8	53	23	30	30	16	1.96
1001040--1001086	5	9.8	5	77	9	53	4	19	53	23	1.63
1001046--1001080	9	3.8	9	85	7	52	5	20	51	22	1.68
1001040--1001086	19	2.5	19	96	0	85	4	19	53	23	1.63
1001041--1001067	14	1.9	14	100	0	54	3	22	51	22	1.63
1001085--1001124	19	2.1	19	86	9	55	27	30	20	22	1.98
1002985--1003038	19	2.8	19	81	10	65	27	31	25	14	1.95
1002979--1003038	10	6.3	9	79	11	57	26	30	28	15	1.96
1010220--1010270	21	2.4	21	77	6	59	33	7	5	52	1.54
1020065--1020127	30	2.1	30	93	0	108	20	17	20	41	1.91
1028766--1028836	36	2.0	36	88	0	106	46	0	11	42	1.39
1030227--1030273	21	2.4	19	82	10	58	27	23	6	42	1.78
1030433--1030466	14	2.4	14	95	0	59	20	11	47	20	1.81
1031054--1031127	20	3.7	20	98	0	139	27	29	6	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031568--1031602	18	1.9	18	88	0	52	28	0	2	68	1.04
1033778--1033841	30	2.1	30	97	0	119	34	18	10	35	1.86
1034438--1034500	23	2.7	23	82	0	81	34	22	3	39	1.70
1037971--1038008	16	2.4	16	95	0	67	55	0	31	13	1.38
1039155--1039213	23	2.6	23	86	5	84	20	28	27	23	1.99
1039161--1039213	23	2.3	23	93	0	88	18	28	28	24	1.98
1045251--1045412	63	2.5	64	82	6	170	34	20	18	25	1.96
1047328--1047377	21	2.4	21	86	0	73	46	8	20	26	1.78
1050996--1051077	23	3.6	23	89	0	101	19	25	25	29	1.99
1057984--1058031	23	2.1	23	88	0	69	27	22	18	31	1.97
1057987--1058041	23	2.4	23	81	0	65	23	25	21	29	1.99
1062678--1062751	38	2.0	38	91	2	123	13	9	36	40	1.77
1062460--1063045	253	2.4	244	87	6	835	23	11	27	36	1.90
1062927--1063015	38	2.3	38	94	3	153	13	10	35	40	1.78
1063208--1063232	12	2.1	12	100	0	50	20	0	24	56	1.43
1063545--1063589	18	2.6	18	89	6	67	26	31	6	35	1.82
1066837--1066895	14	3.8	14	72	23	55	20	6	23	49	1.73
1066832--1066902	34	2.1	34	94	5	126	26	5	22	45	1.75
1067889--1067924	15	2.4	15	95	0	63	47	2	25	25	1.65
1068694--1068821	60	2.1	59	82	5	150	30	19	15	34	1.93
1069527--1069752	20	11.2	20	78	14	177	42	22	19	15	1.89
1069527--1069744	40	5.4	40	80	12	214	41	23	19	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069527--1069752	60	3.8	60	78	12	214	42	22	19	15	1.89
1069848--1070009	6	27.5	6	99	0	303	32	51	16	0	1.45
1070506--1070650	6	24.5	6	99	0	276	0	16	51	32	1.45
1070759--1071025	20	12.8	20	79	17	287	16	19	25	37	1.93
1070752--1070921	87	2.0	87	100	0	340	15	19	25	39	1.91
1071016--1071069	20	2.7	20	94	0	90	11	20	18	50	1.77
1071058--1071106	19	2.5	19	86	3	62	16	16	18	48	1.81
1073086--1073140	24	2.3	24	81	3	58	54	5	0	40	1.23
1075918--1076011	44	2.1	44	98	0	179	31	15	8	43	1.77
1077740--1077769	16	1.9	16	93	6	53	36	16	13	33	1.88
1080909--1080940	16	2.0	16	100	0	64	37	6	12	43	1.68
1081658--1081729	26	2.6	28	82	13	94	40	6	2	50	1.44
1081674--1081758	26	3.2	26	81	6	73	41	7	4	47	1.52
1081664--1081757	28	3.4	29	79	10	97	40	6	4	48	1.48
1084044--1084104	28	2.2	28	90	0	95	27	21	29	21	1.98
1086215--1086250	19	1.9	18	88	5	54	25	22	22	30	1.99
1087907--1087945	21	1.9	20	89	5	60	28	17	15	38	1.91
1087915--1087954	21	1.9	21	84	0	53	30	12	17	40	1.86
1091935--1092062	31	4.1	31	78	9	143	31	18	19	30	1.96
1092050--1092121	30	2.4	30	90	0	108	25	20	23	30	1.99
1095887--1095926	21	1.9	21	89	0	62	27	17	17	37	1.92
1096359--1096385	6	4.5	6	100	0	54	33	0	18	48	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097801--1097834	12	2.7	13	86	9	52	41	5	8	44	1.60
1109468--1109586	49	2.3	52	85	4	163	44	8	6	40	1.61
1130586--1130613	2	14.0	2	100	0	56	50	0	0	50	1.00
1131912--1131945	14	2.3	15	90	5	52	5	14	35	44	1.70
1131998--1132039	16	2.7	15	79	13	50	64	2	0	33	1.07
1132288--1132536	31	8.0	31	96	0	446	19	18	22	38	1.93
1133586--1133613	12	2.3	12	100	0	56	53	7	14	25	1.66
1133666--1133707	7	6.0	7	78	10	50	54	14	16	14	1.71
1135200--1135250	26	2.0	26	85	7	70	72	0	1	25	0.95
1135194--1135236	16	2.7	16	77	0	50	76	0	0	23	0.78
1136118--1136151	2	17.0	2	87	0	50	44	0	0	55	0.99
1140365--1140478	19	6.1	18	74	11	97	18	0	26	54	1.49
1148959--1148991	6	5.3	6	92	7	57	51	18	15	15	1.77
1150813--1150844	13	2.4	14	94	5	57	68	0	0	31	0.90
1152303--1152329	3	9.0	3	100	0	54	66	0	0	33	0.92
1154810--1154840	2	15.5	2	93	0	53	51	0	0	48	1.00
1161497--1161539	17	2.5	17	85	7	61	69	0	0	30	0.88
1162035--1162060	2	13.0	2	100	0	52	50	0	0	50	1.00
1162753--1162777	6	4.2	6	100	0	50	52	0	0	48	1.00
1166077--1166119	18	2.3	19	80	8	52	39	4	0	55	1.20
1168918--1168950	13	2.4	14	90	5	50	45	30	0	24	1.53
1179130--1179216	42	2.3	37	75	16	88	28	5	5	59	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180469--1180548	24	3.0	27	80	12	85	46	5	3	45	1.43
1180502--1180548	24	2.0	24	100	0	94	46	2	4	46	1.34
1180614--1180638	12	2.1	12	100	0	50	40	8	8	44	1.63
1180526--1180791	71	3.7	73	81	11	262	43	5	7	43	1.55
1180527--1180809	108	2.6	110	79	13	311	43	5	7	44	1.55
1180821--1180858	3	12.3	3	94	5	67	31	0	0	68	0.90
1182054--1182111	7	8.0	7	81	14	73	12	1	0	86	0.65
1182056--1182116	1	61.0	1	73	0	50	9	3	0	86	0.67
1182056--1182111	8	7.5	8	82	13	75	10	1	0	87	0.62
1182056--1182116	15	4.1	14	87	8	86	9	3	0	86	0.67
1182054--1182111	22	2.6	22	84	15	84	12	1	0	86	0.65
1182057--1182124	22	3.1	21	78	17	68	10	4	0	85	0.73
1182112--1182144	10	3.4	10	91	4	50	15	12	6	66	1.42
1182199--1182243	2	22.5	2	100	0	90	48	0	0	51	1.00
1194045--1194080	16	2.3	15	90	4	54	41	0	5	52	1.24
1194294--1194324	16	2.0	16	93	6	55	45	29	12	12	1.80
1195002--1195047	17	2.7	17	80	10	58	54	0	0	45	0.99
1195554--1195627	31	2.3	32	84	6	89	44	0	6	48	1.29
1204711--1204751	8	5.2	8	82	5	57	34	0	29	36	1.58
1204822--1205449	128	4.9	128	95	0	1123	23	24	19	33	1.97
1206271--1206371	34	3.0	34	85	0	139	38	2	3	54	1.34
1206881--1206974	21	4.5	21	90	5	136	21	27	32	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206981--1207025	21	2.1	21	83	0	54	24	13	37	24	1.91
1208747--1208835	34	2.7	31	79	6	88	58	2	0	39	1.11
1208747--1208826	34	2.4	33	81	8	92	60	1	0	38	1.05
1209441--1209509	3	23.0	3	96	0	129	66	1	0	31	1.00
1210631--1210675	17	2.6	17	86	6	65	28	11	11	48	1.73
1212402--1212445	20	2.2	20	87	4	61	84	6	6	2	0.86
1212402--1212445	19	2.2	19	88	8	61	84	6	6	2	0.86
1216060--1216164	49	2.3	46	84	12	128	32	1	13	52	1.51
1220375--1220487	20	5.6	20	82	3	136	40	17	23	17	1.91
1220674--1220718	22	2.0	23	91	4	74	24	42	13	20	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64