genome.fa.s8243.2.7.7.80.10.50.1000.7.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  7  of  49  ( 5786 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)
1090977--1091028	20	2.5	21	87	3	70	21	23	17	38	1.93
1091898--1091922	12	2.1	12	100	0	50	72	0	28	0	0.86
1094212--1094276	19	3.7	19	78	19	86	46	18	21	13	1.84
1094227--1094258	14	2.3	14	94	0	55	50	15	21	12	1.77
1094272--1094361	33	2.7	33	92	0	144	16	22	17	43	1.88
1094468--1094504	14	2.6	15	87	12	60	48	21	0	29	1.50
1095859--1095925	21	3.2	21	65	4	55	19	17	35	26	1.94
1095890--1096065	42	4.2	42	79	0	190	23	17	37	21	1.94
1095889--1096064	84	2.1	84	97	0	334	23	17	37	21	1.94
1096302--1096454	78	1.9	79	89	7	238	43	17	13	25	1.85
1098164--1098251	33	2.6	33	85	8	117	39	20	27	12	1.88
1098234--1098298	19	3.4	19	97	0	121	50	21	16	10	1.75
1098299--1098343	19	2.4	19	92	0	72	8	15	26	48	1.74
1098897--1098949	20	2.7	20	90	0	79	28	20	26	24	1.99
1103096--1103133	20	1.9	20	84	10	51	57	18	10	13	1.63
1104063--1104095	2	16.5	2	100	0	66	48	0	0	51	1.00
1105328--1105368	21	2.0	21	90	0	64	17	26	17	39	1.91
1105329--1105375	21	2.2	21	84	0	58	21	25	19	34	1.96
1105365--1105587	20	11.1	20	90	1	349	38	19	20	21	1.93
1108905--1108994	20	4.5	20	88	2	128	34	23	22	20	1.97
1108966--1109046	33	2.4	33	85	6	101	41	20	22	14	1.89
1109053--1109148	33	2.9	34	88	3	140	14	22	19	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110657--1110749	42	2.2	42	80	3	107	22	17	39	20	1.92
1111224--1111359	20	7.4	20	73	21	93	41	22	19	16	1.90
1111244--1111337	33	2.8	34	83	3	127	44	22	19	13	1.85
1111382--1111493	34	3.1	35	75	18	120	21	18	18	41	1.91
1111408--1111527	20	6.3	20	77	13	119	23	18	20	38	1.93
1111366--1111527	74	2.2	73	87	1	225	20	19	19	40	1.92
1111422--1111524	54	1.9	54	89	0	161	21	20	19	38	1.93
1113374--1113428	20	2.8	20	91	0	83	49	23	16	10	1.77
1113489--1113535	20	2.3	20	88	0	67	21	19	23	36	1.95
1114123--1114215	20	4.7	20	87	0	123	20	17	22	39	1.92
1114125--1114215	40	2.3	40	88	0	137	19	17	23	39	1.92
1114214--1114257	21	2.1	21	86	0	61	38	11	27	22	1.88
1116303--1116375	21	3.5	21	81	7	94	20	34	20	24	1.97
1117063--1117093	14	2.2	14	100	0	62	58	16	0	25	1.38
1117091--1117383	133	2.2	133	88	0	433	35	22	4	37	1.76
1117292--1117419	63	2.0	63	90	0	202	39	21	0	38	1.59
1117663--1118227	117	4.9	117	91	1	827	32	22	22	21	1.98
1117561--1118206	234	2.7	232	88	4	882	33	21	22	22	1.97
1121230--1121281	27	2.0	27	85	11	72	28	3	9	57	1.48
1121994--1122110	61	1.9	61	82	5	148	24	31	25	17	1.97
1122248--1122279	15	2.1	15	94	0	55	31	0	9	59	1.29
1123720--1123771	23	2.3	22	83	9	68	44	0	11	44	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124879--1124975	38	2.6	39	79	9	105	32	46	5	15	1.68
1126362--1126395	3	11.3	3	93	0	59	32	2	0	64	1.08
1126458--1126507	25	2.0	25	92	0	82	36	4	22	38	1.73
1127264--1127320	29	2.0	29	96	0	105	22	31	29	15	1.95
1127408--1127465	23	2.5	23	88	0	89	25	18	17	37	1.93
1127641--1127678	9	4.2	9	83	10	51	31	0	2	65	1.06
1127715--1127744	4	7.5	4	92	0	51	26	0	20	53	1.46
1127672--1127783	47	2.3	49	89	6	167	33	1	16	47	1.58
1127875--1127927	28	1.9	27	88	3	79	32	1	16	49	1.57
1127874--1127938	27	2.3	29	82	10	82	36	1	15	46	1.55
1128144--1128183	21	1.9	21	100	0	80	27	0	15	57	1.38
1128365--1128460	28	3.3	30	83	8	112	40	1	11	46	1.47
1129744--1129788	23	2.0	23	86	0	63	37	4	2	55	1.32
1129738--1129787	23	2.3	21	80	10	55	38	4	2	56	1.30
1130757--1130789	11	2.8	12	90	9	50	39	9	12	39	1.74
1130777--1130821	21	2.1	22	83	4	56	53	4	2	40	1.33
1130961--1131367	14	31.1	14	71	18	234	45	7	2	44	1.45
1131036--1131130	3	32.7	3	74	6	61	41	4	2	52	1.32
1130948--1131367	26	16.7	26	77	12	282	45	7	2	44	1.45
1130948--1131308	90	4.0	89	75	16	300	44	7	2	45	1.46
1131051--1131687	116	5.6	113	71	18	369	43	8	3	44	1.49
1131285--1131329	21	2.1	22	83	4	56	53	4	2	40	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131470--1131687	14	16.1	14	70	20	124	44	8	1	45	1.42
1131457--1131600	25	5.7	26	82	6	145	45	6	2	45	1.43
1131636--1131931	49	6.1	49	88	5	388	43	10	0	45	1.42
1130740--1131800	509	2.1	501	86	7	1375	44	8	3	43	1.51
1135684--1135794	50	2.4	48	80	12	135	48	9	0	41	1.41
1135768--1135816	21	2.3	21	85	3	71	53	16	0	30	1.43
1138127--1138193	23	3.0	22	82	6	80	62	5	1	29	1.28
1139054--1139238	23	8.3	23	74	12	134	40	9	16	34	1.81
1139071--1139272	110	1.8	110	93	2	352	41	10	14	33	1.81
1139612--1139832	87	2.6	86	82	5	268	39	9	4	46	1.57
1140465--1140515	15	3.2	15	80	8	57	27	52	1	17	1.55
1140477--1140512	18	2.0	18	88	0	54	25	52	2	19	1.59
1151082--1151115	14	2.4	14	100	0	68	17	17	5	58	1.57
1161592--1161618	13	2.1	13	100	0	54	55	37	0	7	1.28
1163438--1163465	14	2.0	14	100	0	56	57	7	14	21	1.61
1164322--1164459	69	2.0	69	100	0	276	56	15	8	18	1.65
1166239--1166319	20	4.0	20	85	1	81	32	22	19	25	1.98
1166346--1166403	26	2.2	26	96	0	107	46	18	12	22	1.82
1166477--1166529	22	2.5	22	78	6	65	24	39	7	28	1.82
1166803--1166852	20	2.5	20	90	3	84	12	18	24	46	1.82
1170393--1170432	14	2.9	14	80	0	53	30	0	17	52	1.45
1170342--1170482	61	2.2	65	83	8	175	31	1	16	50	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170585--1170623	20	2.0	20	94	0	69	17	20	23	38	1.93
1171151--1171187	18	2.1	18	89	0	56	51	10	5	32	1.60
1171574--1171623	25	2.0	25	92	0	82	44	20	8	28	1.79
1171573--1171622	14	3.8	13	72	17	50	44	22	8	26	1.80
1171734--1171873	60	2.3	60	83	0	190	42	19	17	20	1.89
1171735--1171873	20	6.9	20	84	0	152	43	19	17	20	1.89
1172163--1172198	18	2.0	18	94	0	63	16	2	25	55	1.55
1174394--1174446	24	2.2	24	89	0	79	37	20	18	22	1.94
1175345--1175398	20	2.7	20	77	11	74	25	14	31	27	1.95
1178485--1178579	45	2.1	45	82	0	109	23	29	22	25	1.99
1185144--1185210	28	2.4	28	87	7	100	73	1	1	23	1.00
1185160--1185207	13	3.5	13	74	20	53	75	0	0	25	0.81
1185163--1185290	41	3.1	39	77	12	116	67	3	1	27	1.14
1185163--1185267	19	5.4	19	68	18	65	69	1	1	26	1.09
1185177--1185267	16	5.4	16	69	21	62	69	2	2	26	1.12
1185223--1185279	19	2.8	22	76	17	68	66	5	1	26	1.22
1185382--1185413	2	16.5	2	93	6	57	53	0	0	46	1.00
1185449--1185482	16	2.1	17	94	5	61	73	0	0	26	0.83
1185889--1185977	37	2.4	37	84	0	106	30	12	14	42	1.82
1186479--1186677	103	1.9	104	87	3	294	23	18	25	32	1.97
1186851--1187157	101	3.1	103	87	7	422	35	11	21	30	1.89
1187235--1187365	66	1.9	71	84	7	182	38	12	19	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188473--1188984	177	2.9	178	88	7	743	29	21	21	27	1.98
1192359--1192393	18	1.9	18	88	11	54	65	0	25	8	1.21
1193662--1193715	25	2.2	25	83	6	65	74	0	1	24	0.92
1193658--1193715	17	3.2	18	74	16	57	74	0	1	24	0.92
1194397--1194483	35	2.4	35	84	3	102	29	12	13	43	1.81
1201110--1201160	24	2.2	23	89	3	75	15	15	13	54	1.71
1204201--1204293	37	2.4	39	87	8	136	41	1	3	53	1.24
1205185--1205236	6	8.7	6	97	0	77	40	0	59	0	0.97
1206106--1206309	101	2.0	101	96	0	372	28	12	21	37	1.90
1206550--1206636	42	2.0	43	82	6	106	39	1	12	47	1.49

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