genome.fa.s7962.2.7.7.80.10.50.1000.6.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: VEPZ01007962.1 Hibiscus syriacus cultivar Beakdansim tig00110391_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1774241

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 951 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)
1074207--1074302	2	48.0	2	72	19	67	50	1	5	43	1.31
1074273--1074607	22	15.6	21	71	23	170	54	2	7	35	1.42
1074372--1074409	18	2.1	18	90	9	60	52	10	0	36	1.36
1074446--1074629	26	7.1	26	70	21	77	55	1	7	35	1.37
1074480--1074621	20	7.0	20	74	21	127	56	1	8	33	1.38
1074217--1074629	195	2.1	192	85	9	543	53	2	7	37	1.41
1074514--1074607	42	2.3	41	90	5	147	58	1	7	32	1.33
1074618--1074877	2	132.0	2	69	22	124	40	5	1	53	1.31
1074610--1074688	10	8.7	9	81	16	76	48	3	1	46	1.28
1074624--1074915	20	14.2	21	71	22	103	39	5	1	53	1.33
1075008--1075032	9	2.8	9	100	0	50	56	8	0	36	1.29
1075065--1075118	21	2.5	22	80	14	60	48	7	1	42	1.42
1075108--1075161	22	2.6	21	85	5	74	44	7	1	46	1.42
1075179--1075219	2	22.0	2	83	14	52	43	0	0	56	0.99
1075186--1075222	17	2.1	19	90	10	60	37	0	0	62	0.96
1080352--1080399	20	2.5	20	83	10	55	47	4	14	33	1.63
1085366--1085724	82	4.4	82	84	0	450	32	13	15	38	1.86
1087006--1087105	19	5.3	19	77	4	87	34	17	2	47	1.59
1087045--1087091	18	2.6	18	82	3	58	31	21	4	42	1.72
1088650--1088679	13	2.3	13	94	0	51	26	23	16	33	1.96
1089792--1089843	26	2.0	26	100	0	104	34	7	15	42	1.75
1090228--1090259	16	1.9	17	93	6	57	50	15	6	28	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094421--1094492	29	2.4	29	79	2	81	27	20	6	44	1.77
1094402--1094491	30	3.0	30	77	1	92	30	18	5	45	1.72
1105698--1105923	15	14.5	14	68	21	89	75	3	3	17	1.10
1105693--1105817	23	5.6	21	69	16	65	76	4	4	14	1.09
1105676--1105794	9	12.4	9	69	16	62	78	3	6	11	1.07
1105810--1105905	43	2.3	41	79	13	108	75	4	1	19	1.03
1105845--1105905	32	1.9	32	83	12	81	72	1	1	24	1.03
1105731--1105932	24	8.3	24	71	19	88	74	2	2	19	1.07
1105826--1105932	42	2.5	42	82	13	121	72	1	1	23	1.04
1105738--1105929	10	19.2	10	65	21	57	75	3	2	19	1.06
1107093--1107123	15	2.1	15	93	0	53	6	22	45	25	1.76
1110371--1110413	21	2.0	21	81	0	50	30	30	25	13	1.94
1110393--1110544	67	2.2	68	91	1	243	30	27	26	15	1.96
1111020--1111323	149	2.0	149	98	0	581	27	16	20	35	1.94
1111302--1111346	23	2.0	23	86	0	63	20	24	28	26	1.99
1117402--1117444	21	2.0	21	81	0	50	30	30	25	13	1.94
1117424--1117574	67	2.3	67	90	0	230	31	27	25	15	1.96
1117538--1117575	20	1.9	20	94	0	67	23	36	31	7	1.84
1118328--1118372	23	2.0	23	81	0	54	22	24	26	26	2.00
1128357--1128381	10	2.5	10	100	0	50	20	0	20	60	1.37
1128740--1128874	67	2.0	67	100	0	270	41	14	4	39	1.66
1129528--1129601	3	24.7	3	94	0	130	35	1	0	63	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129527--1129613	9	9.1	9	84	10	84	39	1	0	59	1.05
1129597--1129626	11	2.8	11	95	5	53	56	0	0	43	0.99
1130892--1130944	19	2.5	20	82	14	63	24	7	1	66	1.28
1142359--1142428	6	11.5	6	75	17	56	81	1	17	0	0.77
1142353--1142429	16	4.8	15	83	12	73	80	1	18	0	0.78
1142351--1142412	22	2.8	22	87	2	88	80	0	19	0	0.71
1142359--1142430	7	10.6	7	72	19	55	80	1	18	0	0.78
1142354--1142422	10	7.1	9	79	15	52	81	1	17	0	0.77
1142370--1142430	33	1.9	31	93	6	104	81	1	16	0	0.76
1142742--1142786	16	2.8	16	83	10	56	28	8	6	55	1.56
1143526--1144329	83	9.7	83	91	2	1253	27	13	22	36	1.91
1144976--1146591	112	14.0	112	86	8	2240	38	13	19	28	1.90
1144999--1146664	237	7.2	230	90	6	2340	38	13	19	28	1.90
1144976--1146591	349	4.7	349	92	4	2497	38	13	19	28	1.90
1146908--1146994	3	28.7	3	92	2	147	34	2	0	63	1.07
1146990--1147019	11	2.8	11	95	5	53	56	0	0	43	0.99
1153013--1153111	30	3.2	30	77	12	103	40	3	12	44	1.57
1153779--1153817	20	2.0	20	90	5	62	23	17	15	43	1.87
1164223--1164254	3	10.7	3	100	0	64	65	0	0	34	0.93
1168412--1168441	2	15.0	2	92	0	51	50	3	0	46	1.18
1171973--1172008	18	2.0	18	88	0	54	38	36	19	5	1.75
1177471--1177520	20	2.5	20	96	0	91	66	22	0	12	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179375--1179403	13	2.2	13	100	0	58	13	24	31	31	1.94
1181110--1181498	145	2.7	145	84	2	519	35	22	12	29	1.91
1190126--1190158	3	11.3	3	87	6	50	36	3	0	60	1.12
1191589--1191635	17	2.8	17	75	12	60	42	4	0	53	1.20
1196793--1196828	2	18.0	2	100	0	72	50	0	0	50	1.00
1197123--1197185	22	2.9	21	81	11	74	80	0	14	4	0.86
1197123--1197181	14	4.2	13	79	12	64	83	0	13	3	0.78
1197123--1197172	26	2.0	26	84	11	68	84	0	12	4	0.76
1199406--1199631	114	2.0	114	89	1	346	33	15	19	30	1.94
1202119--1202195	22	3.5	22	96	0	145	33	11	14	40	1.82
1202871--1203741	76	11.5	76	96	0	1535	23	20	22	33	1.97
1203861--1203904	3	15.3	3	90	9	74	36	0	0	63	0.95
1205093--1205157	27	2.4	28	84	5	80	26	1	3	69	1.12
1205345--1205400	15	3.7	15	80	20	64	33	1	0	64	1.04
1205377--1205413	19	2.0	19	94	5	67	29	0	0	70	0.88
1207271--1207339	2	35.0	2	97	2	131	50	0	0	49	1.00
1208158--1208252	2	48.0	2	93	6	167	49	1	0	49	1.07
1211106--1211143	18	2.1	18	100	0	76	31	15	15	36	1.90
1218393--1218837	221	2.0	223	99	0	876	30	22	12	34	1.91
1221164--1221210	24	2.0	24	95	0	85	36	27	23	12	1.91
1221193--1221352	21	7.5	21	70	15	87	35	26	16	21	1.95
1227691--1227757	21	3.0	22	72	10	66	35	23	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227708--1227845	21	6.5	21	68	8	82	36	22	17	23	1.94
1227691--1227814	43	2.9	43	79	10	139	38	23	16	21	1.92
1233763--1233805	13	3.3	13	80	6	52	41	9	11	37	1.74
1234274--1234324	23	2.2	23	96	0	93	27	19	31	21	1.97
1234283--1234332	23	2.2	23	92	0	82	28	26	26	20	1.99
1237851--1237890	20	2.0	21	90	5	64	22	17	10	50	1.76
1239702--1239744	20	2.1	21	83	12	54	18	20	16	44	1.87
1241322--1241389	22	3.1	22	87	2	102	25	25	20	29	1.99
1247457--1247583	67	1.9	68	86	4	186	35	25	19	19	1.95
1248148--1248207	21	2.8	22	89	2	86	25	23	25	26	2.00
1248147--1248214	22	3.1	21	80	2	73	26	22	22	29	1.99
1250616--1250662	17	2.9	16	84	12	60	78	8	12	0	0.95
1250638--1250662	13	1.9	13	100	0	50	88	4	8	0	0.64
1251516--1251578	23	2.8	21	71	19	54	31	14	4	49	1.64
1251877--1251983	36	2.9	36	83	5	126	31	18	10	39	1.84
1251991--1252078	36	2.4	36	81	7	90	30	15	12	40	1.85
1252131--1252238	29	3.5	29	68	20	83	24	17	14	43	1.87
1252013--1252336	65	5.0	65	83	5	352	24	17	14	43	1.86
1252013--1252336	129	2.5	132	81	4	372	24	17	14	43	1.86
1252341--1252826	131	3.7	131	79	3	460	26	30	16	26	1.97
1256426--1256467	2	21.0	2	100	0	84	0	50	0	50	1.00
1256472--1256508	14	2.6	14	95	0	65	51	8	35	5	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263705--1263796	36	2.6	36	96	0	166	45	11	9	32	1.74
1267072--1267098	13	2.1	13	100	0	54	44	0	29	25	1.54
1267988--1268138	66	2.3	66	95	0	266	35	18	7	39	1.79
1269036--1269075	20	2.2	19	86	13	57	32	0	2	65	1.06
1269955--1270172	21	10.5	21	81	10	252	30	25	20	22	1.98
1269955--1270172	104	2.1	104	92	1	357	30	25	20	22	1.98
1270173--1270210	6	6.7	6	96	3	62	28	52	18	0	1.45
1270712--1270756	6	7.5	6	100	0	90	0	15	51	33	1.44
1273499--1273559	31	2.0	31	90	6	97	39	8	4	47	1.55
1274781--1274868	38	2.3	38	88	1	124	13	10	36	39	1.79

Tables:   1   2   3   4   5   6   7   8