genome.fa.s9462.2.7.7.80.10.50.1000.6.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  6  of  91  ( 10815 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)
1093124--1093223	33	3.0	34	82	2	130	39	2	4	55	1.30
1093743--1093836	21	4.5	21	92	5	129	20	26	35	18	1.95
1093840--1093887	21	2.3	21	85	0	60	22	12	39	25	1.89
1095611--1095698	31	2.7	31	80	5	95	59	2	0	38	1.10
1095611--1095689	34	2.4	33	83	6	99	60	1	0	37	1.05
1095644--1095718	32	2.3	34	84	11	95	64	5	0	30	1.16
1101445--1101479	14	2.4	14	90	4	52	31	0	2	65	1.07
1101431--1101481	25	2.0	27	84	7	70	35	0	1	62	1.06
1107880--1107928	21	2.3	21	78	3	53	32	2	14	51	1.54
1107898--1107963	28	2.4	28	77	10	80	33	1	10	54	1.44
1107976--1108000	8	3.1	8	100	0	50	28	0	12	60	1.32
1108293--1108333	22	1.9	21	85	14	57	68	2	29	0	1.03
1108463--1108507	24	1.9	24	81	4	56	42	0	8	48	1.34
1111774--1111850	22	3.3	22	65	28	59	44	0	10	45	1.38
1111734--1111921	49	3.8	49	95	0	331	44	0	10	45	1.37
1111807--1111942	49	2.5	57	73	22	153	46	0	9	44	1.36
1111919--1111953	17	2.0	17	94	5	61	57	0	5	37	1.23
1112132--1112174	12	3.7	11	90	9	68	53	0	2	44	1.13
1112124--1112172	23	2.1	23	88	7	73	55	0	4	40	1.19
1112196--1112428	26	9.3	25	82	9	201	44	2	9	42	1.51
1112207--1112483	26	11.2	23	76	12	164	44	1	9	44	1.46
1112346--1112499	14	12.1	13	67	21	78	46	0	8	44	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112382--1112427	9	5.2	9	81	5	58	52	0	10	36	1.37
1112123--1112465	150	2.3	145	85	5	440	44	1	9	44	1.47
1112123--1112499	147	2.5	149	80	8	414	45	1	9	44	1.45
1112627--1112668	17	2.5	16	85	11	57	42	0	0	57	0.99
1115016--1115064	22	2.2	22	96	0	89	38	14	2	44	1.56
1115008--1115133	30	4.4	30	74	21	103	45	10	1	42	1.47
1115014--1115094	22	3.3	22	68	23	63	41	12	1	44	1.50
1115380--1115473	29	3.0	29	79	11	98	50	8	0	41	1.33
1115379--1115433	18	3.4	18	65	31	52	52	9	0	38	1.33
1115422--1115485	31	1.9	31	84	12	83	43	7	0	48	1.32
1115824--1115859	11	3.2	11	84	7	54	38	19	22	19	1.93
1116010--1116117	29	4.0	28	79	17	129	18	25	37	18	1.94
1116046--1116091	22	2.1	22	100	0	92	21	21	39	17	1.93
1116017--1116117	51	2.0	51	90	3	159	18	24	36	19	1.95
1117370--1117453	22	3.9	22	92	7	138	30	0	69	0	0.89
1117377--1117445	18	3.6	18	80	14	84	30	0	69	0	0.89
1117370--1117455	4	23.5	4	75	17	62	31	0	68	0	0.90
1117370--1117457	18	4.8	18	78	5	79	31	0	68	0	0.90
1117895--1117924	12	2.5	12	100	0	60	93	0	6	0	0.35
1121823--1121916	46	2.1	45	90	6	145	50	6	6	37	1.54
1128524--1128576	22	2.4	22	93	6	90	45	11	5	37	1.64
1132444--1132476	16	2.1	16	100	0	66	24	27	6	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138792--1138875	29	2.8	30	83	7	98	48	11	15	23	1.78
1143149--1143202	28	1.9	28	96	0	99	33	9	27	29	1.88
1144121--1144168	23	2.1	23	100	0	96	16	8	20	54	1.68
1145288--1145332	19	2.4	19	80	0	54	40	0	17	42	1.50
1153752--1153841	3	28.0	3	72	12	63	36	1	4	57	1.26
1153730--1153838	23	4.8	22	78	6	110	37	0	5	55	1.29
1153730--1153848	10	11.5	10	71	13	80	38	0	5	55	1.28
1158538--1158599	31	2.0	31	93	0	106	29	16	22	32	1.95
1166477--1166507	15	2.1	15	93	0	53	45	0	0	54	0.99
1166656--1166698	20	2.3	18	80	11	50	20	25	9	44	1.81
1167038--1167082	20	2.2	20	96	0	81	35	13	24	26	1.92
1167249--1167296	21	2.3	21	96	0	87	16	22	25	35	1.95
1169243--1169594	175	2.0	175	100	0	704	38	23	13	25	1.91
1170093--1170121	6	4.8	6	100	0	58	0	17	51	31	1.45
1170080--1170136	18	3.2	18	79	0	69	8	22	45	22	1.80
1176805--1176845	15	2.8	15	85	3	57	51	4	0	43	1.23
1176805--1176864	29	2.1	28	84	3	75	48	6	1	43	1.39
1176727--1176878	76	2.0	73	83	8	191	44	7	3	45	1.47
1177143--1177198	27	2.1	27	100	0	112	48	10	0	41	1.38
1177187--1177352	25	6.6	25	69	19	96	46	9	1	42	1.47
1177192--1177352	36	4.2	39	66	18	97	46	9	1	41	1.48
1177238--1178317	14	78.0	14	64	25	175	46	10	2	40	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177344--1177462	49	2.5	46	90	5	186	47	10	2	40	1.51
1177448--1177537	25	3.3	27	84	6	94	46	11	1	41	1.46
1177307--1178109	177	4.6	177	85	12	1135	47	10	1	40	1.49
1177536--1177805	39	6.8	39	72	18	209	47	10	2	39	1.51
1177231--1178235	337	3.0	336	92	5	1567	46	10	2	40	1.50
1177626--1177838	39	5.3	39	63	25	104	47	10	1	40	1.48
1177776--1178338	25	22.0	25	67	22	141	46	10	1	41	1.49
1177870--1177982	41	2.8	40	92	4	183	46	11	1	39	1.50
1177654--1178161	177	2.9	178	87	7	527	46	10	1	40	1.49
1178178--1178286	8	14.1	8	65	21	54	45	11	2	40	1.54
1178225--1178273	22	2.2	22	92	0	80	46	10	2	40	1.49
1177236--1178340	514	2.1	519	81	12	1374	46	10	1	40	1.49
1178327--1178373	16	2.9	16	80	0	67	51	19	0	29	1.47
1178327--1178372	24	1.9	24	95	0	83	52	19	0	28	1.47
1178327--1178373	8	5.9	8	87	0	58	51	19	0	29	1.47
1178389--1178424	13	2.8	13	87	4	56	41	13	2	41	1.59
1178415--1178466	22	2.5	20	84	9	61	38	11	5	44	1.65
1183457--1183522	30	2.2	30	83	0	78	34	22	30	12	1.91
1189893--1189938	12	3.8	12	80	5	56	63	15	4	17	1.47
1189888--1189959	25	2.8	25	81	6	74	66	11	2	19	1.35
1193994--1194026	17	1.9	17	88	11	50	18	24	36	21	1.95
1195333--1195392	23	2.6	23	76	7	59	11	13	0	75	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195350--1195382	16	2.1	17	88	11	52	12	6	0	81	0.85
1196297--1196321	11	2.3	11	100	0	50	72	0	0	28	0.86
1196383--1196461	41	2.0	39	85	5	104	55	5	0	39	1.22
1196383--1196490	39	2.7	41	81	5	114	54	4	1	38	1.32
1196719--1196752	14	2.4	14	100	0	68	20	14	5	58	1.57
1202632--1202696	32	2.0	32	100	0	130	27	18	6	47	1.72
1203640--1203664	2	12.5	2	100	0	50	52	0	48	0	1.00
1205142--1205175	12	2.7	13	81	9	52	29	0	0	70	0.87
1205708--1205874	80	2.0	83	86	4	232	52	5	0	40	1.30
1211811--1211864	23	2.4	22	84	9	65	25	18	3	51	1.62
1213461--1213553	41	2.2	42	86	1	125	39	3	5	51	1.41
1213581--1213627	23	2.2	22	88	11	71	23	4	4	68	1.26
1215000--1215127	64	2.0	64	96	0	238	26	20	14	38	1.91
1215360--1215392	17	1.9	17	93	0	57	9	3	6	81	0.95
1225914--1225987	1	74.0	1	75	0	67	87	10	1	0	0.60
1225914--1225987	7	10.6	7	79	17	75	87	10	1	0	0.60
1225914--1225987	23	3.2	22	83	7	94	87	10	1	0	0.60
1225914--1225989	39	1.9	39	91	2	125	86	10	2	0	0.66
1226823--1227852	105	9.9	105	94	2	1721	34	25	17	22	1.96
1226823--1227852	208	5.0	210	94	2	1721	34	25	17	22	1.96
1226826--1227852	313	3.3	313	93	2	1718	34	25	17	22	1.96
1227559--1227855	94	3.0	94	87	5	378	34	25	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229377--1229504	64	2.0	64	95	0	229	26	21	14	37	1.92
1229737--1229769	17	1.9	17	93	0	57	9	3	6	81	0.95
1233076--1233146	5	14.4	5	76	2	63	70	1	2	25	1.09
1233076--1233145	20	3.6	19	84	7	86	70	1	2	25	1.10
1233928--1233979	25	2.0	26	88	3	79	28	7	9	53	1.61
1236389--1236417	3	9.7	3	100	0	58	31	0	0	68	0.89
1238542--1238584	21	2.0	23	86	9	63	34	0	4	60	1.17
1239462--1239580	44	2.7	42	84	10	141	31	15	21	31	1.94
1245278--1245354	36	2.1	36	82	0	100	40	22	15	22	1.91
1245767--1246436	50	13.5	50	80	12	588	33	19	25	21	1.97

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91