genome.fa.s1547.2.7.7.80.10.50.1000.6.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  6  of  51  ( 6083 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)
1090805--1090885	30	2.7	30	90	1	119	41	3	16	38	1.66
1090869--1090918	20	2.5	20	93	0	91	42	10	14	34	1.78
1091014--1091112	49	2.0	50	80	9	114	47	2	0	50	1.12
1091247--1091426	29	6.3	29	71	20	116	50	1	0	47	1.12
1091249--1091323	28	2.7	28	84	14	93	54	1	0	44	1.08
1091362--1091405	22	2.0	23	86	4	63	54	0	0	45	0.99
1091366--1091422	21	2.6	22	81	10	64	52	0	0	47	1.00
1091302--1091422	54	2.3	51	77	19	133	50	0	0	47	1.12
1091611--1091722	42	2.7	42	91	0	179	48	16	16	18	1.82
1092088--1092123	18	1.9	19	94	5	65	63	0	0	36	0.94
1098166--1098490	166	2.0	167	96	0	607	45	20	12	21	1.83
1102062--1102127	15	4.4	15	84	0	87	40	3	15	40	1.62
1102062--1102142	30	2.7	30	90	1	119	41	3	16	38	1.66
1102126--1102175	20	2.5	20	93	0	91	42	10	14	34	1.78
1102271--1102369	49	2.0	50	80	9	114	47	2	0	50	1.12
1102504--1102575	28	2.5	30	80	15	96	52	1	0	45	1.09
1102505--1102671	29	5.9	27	71	17	94	50	1	0	47	1.13
1102620--1102663	22	2.0	23	86	4	63	54	0	0	45	0.99
1102624--1102680	21	2.6	22	81	10	64	52	0	0	47	1.00
1102560--1102680	54	2.3	51	77	19	133	50	0	0	47	1.12
1102869--1102980	42	2.7	42	91	0	179	48	16	16	18	1.82
1103342--1103458	51	2.3	52	77	16	129	53	2	0	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109427--1109460	17	2.1	16	88	5	50	14	8	0	76	1.01
1115801--1115843	20	2.1	21	87	8	63	18	13	0	67	1.23
1115800--1115849	20	2.5	20	75	15	59	18	18	0	64	1.30
1119663--1119696	17	2.1	16	88	5	50	14	8	0	76	1.01
1121354--1121678	166	2.0	167	97	0	616	45	20	12	20	1.83
1123741--1123799	32	1.9	30	83	13	75	35	25	32	6	1.82
1124562--1124594	11	2.9	12	91	8	52	18	33	30	18	1.94
1128650--1129035	137	2.8	138	87	1	542	26	16	29	28	1.96
1129063--1129256	66	2.9	66	88	0	280	41	12	17	28	1.86
1129097--1129206	30	3.5	30	68	18	87	41	12	16	29	1.85
1129508--1129593	35	2.4	37	88	3	122	38	13	18	29	1.90
1154413--1154466	24	2.2	24	86	0	72	29	14	25	29	1.95
1172242--1172267	2	13.0	2	100	0	52	50	0	0	50	1.00
1172785--1172846	3	21.0	3	96	3	117	33	0	0	66	0.92
1186216--1186811	301	2.0	296	98	1	1147	29	25	17	27	1.98
1191039--1191519	223	2.1	227	93	3	837	44	8	7	39	1.63
1191797--1191843	20	2.4	19	89	10	76	55	10	17	17	1.69
1191585--1192056	181	2.6	182	89	1	689	42	14	16	26	1.87
1191978--1192024	20	2.4	19	82	10	67	53	10	17	19	1.72
1191987--1192029	20	2.3	19	88	11	63	51	11	16	20	1.75
1194251--1194315	21	3.1	21	79	0	76	38	13	30	16	1.88
1194349--1194414	33	2.0	33	90	0	105	28	0	48	22	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196206--1196252	19	2.6	19	90	6	71	29	2	10	57	1.44
1196361--1197315	198	4.8	199	96	1	1733	36	15	16	31	1.90
1198775--1198854	6	13.3	6	78	0	61	37	7	35	20	1.81
1198778--1198824	24	2.0	24	95	0	85	36	10	36	17	1.84
1198814--1198858	3	15.0	3	85	0	63	37	2	33	26	1.69
1198778--1198854	12	6.4	12	84	0	73	36	7	35	20	1.82
1199976--1200018	21	2.1	21	86	4	61	30	11	6	51	1.65
1200323--1200808	183	2.7	182	95	1	855	34	14	16	33	1.90
1203280--1203344	25	2.6	25	80	0	85	35	9	13	41	1.77
1203691--1203763	23	3.2	23	88	0	101	34	4	21	39	1.73
1204017--1204042	9	2.9	9	100	0	52	34	11	30	23	1.90
1204198--1204234	18	2.1	18	89	0	56	32	5	10	51	1.60
1204190--1204236	24	2.0	24	86	0	67	34	4	14	46	1.64
1204494--1204580	39	2.2	39	91	0	147	48	19	13	18	1.81
1205002--1205074	23	3.2	23	88	0	101	34	4	21	39	1.73
1205220--1205286	30	2.2	29	82	10	73	52	4	0	43	1.21
1210583--1210683	25	4.0	25	72	11	80	68	0	3	26	1.13
1212229--1212289	31	1.9	31	86	3	86	45	3	0	50	1.17
1213158--1213283	16	7.8	16	75	18	93	5	19	0	74	1.06
1213199--1213353	7	21.4	7	76	15	72	9	10	0	80	0.92
1213277--1213350	1	74.0	1	72	0	58	13	0	0	86	0.57
1213224--1213353	8	16.0	8	75	14	63	9	9	0	81	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213288--1213349	6	9.8	6	93	6	97	14	0	0	85	0.60
1213287--1213350	20	3.3	20	93	6	114	14	0	0	85	0.59
1224790--1224829	17	2.4	17	86	0	53	60	5	12	22	1.52
1228314--1228366	20	2.7	20	100	0	106	24	30	20	24	1.99
1228542--1228607	22	3.0	22	90	0	105	24	39	15	21	1.91
1228676--1228722	20	2.3	20	92	0	76	21	19	27	31	1.97
1228709--1228770	20	3.0	21	71	4	72	22	20	19	37	1.95
1228709--1228782	20	3.7	20	70	3	67	22	21	18	36	1.95
1228778--1228824	21	2.2	21	84	0	67	36	17	25	21	1.94
1230070--1230113	17	2.6	16	80	20	54	50	6	0	43	1.29
1237267--1237299	3	11.0	3	93	0	57	33	0	3	63	1.10
1239486--1239738	126	2.0	126	91	0	407	27	22	17	31	1.97
1241429--1241455	13	2.1	13	100	0	54	33	14	7	44	1.73
1244082--1244234	60	2.5	60	81	5	166	31	22	7	38	1.81
1244376--1244560	60	3.1	59	78	12	180	41	4	22	31	1.73
1244455--1244543	29	3.0	29	69	16	83	41	5	19	33	1.74
1244801--1244911	49	2.2	50	93	1	188	42	25	4	27	1.74
1248159--1248669	254	2.0	254	100	0	1022	31	19	18	30	1.96
1251620--1251666	21	2.2	21	84	0	67	19	27	17	36	1.93
1251681--1251773	41	2.3	41	78	9	100	34	21	16	27	1.95
1252578--1252631	24	2.2	24	93	0	90	20	18	20	40	1.91
1255060--1255132	20	3.7	20	84	12	105	36	26	19	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255135--1255230	33	2.9	34	88	3	140	13	23	20	41	1.88
1255332--1255368	14	2.6	14	86	0	56	48	21	0	29	1.50
1257304--1257457	34	4.4	34	74	11	139	42	21	20	16	1.89
1257354--1257387	14	2.4	15	85	14	54	55	23	11	8	1.63
1257372--1257439	20	3.4	20	87	0	73	38	22	17	22	1.93
1257447--1257568	54	2.3	53	88	1	172	19	21	19	39	1.93
1257485--1257568	20	4.5	20	74	17	90	21	20	20	38	1.94
1259434--1259521	20	4.5	20	82	2	81	44	22	17	15	1.86
1264214--1264242	14	2.0	15	93	6	51	44	0	0	55	0.99
1264270--1264775	99	5.1	99	99	0	985	41	13	6	38	1.70
1266152--1266189	18	2.0	20	85	10	53	31	0	7	60	1.25
1266148--1266208	20	2.8	22	75	14	63	29	0	6	63	1.19
1267939--1267986	21	2.3	21	85	0	60	27	39	10	22	1.87
1267990--1268061	21	3.5	21	87	9	103	18	34	26	20	1.95
1268213--1268260	21	2.3	21	85	0	60	27	39	10	22	1.87
1268264--1268336	21	3.5	21	88	7	112	17	34	27	20	1.95
1267929--1268480	275	2.0	275	99	0	1088	23	28	20	27	1.99
1271779--1272283	276	1.8	276	86	1	735	39	8	12	40	1.73
1273411--1273450	18	2.2	18	86	8	55	30	12	2	55	1.50
1277259--1277325	22	3.0	22	84	2	71	44	0	2	52	1.16
1277255--1277329	22	3.5	22	73	7	57	46	0	2	50	1.15
1278786--1278827	15	2.8	15	88	0	66	50	26	16	7	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279675--1279749	35	2.1	36	87	2	107	18	41	10	29	1.84
1280092--1280263	15	11.3	15	64	6	67	45	26	19	8	1.78
1280104--1280171	30	2.3	30	84	5	84	44	27	19	8	1.80
1280134--1280236	48	2.2	45	81	8	109	50	25	16	7	1.71
1280565--1280630	33	2.0	33	93	0	114	50	10	16	22	1.76
1280570--1280626	17	3.4	17	69	13	55	49	12	15	22	1.78
1289130--1289246	30	3.9	29	82	13	132	76	0	18	4	1.01
1289130--1289249	16	7.6	16	70	22	85	76	0	18	4	0.99
1289149--1289229	39	2.1	38	82	10	103	77	0	17	4	0.93
1289135--1289229	9	9.4	10	75	18	65	76	0	18	4	0.94

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