genome.fa.s8374.2.7.7.80.10.50.1000.7.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: VEPZ01008374.1 Hibiscus syriacus cultivar Beakdansim tig00111131_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1731758

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  7  of  10  ( 1105 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)
1140825--1140891	18	3.7	18	91	0	107	23	34	16	25	1.95
1140823--1140891	36	1.9	36	93	0	120	24	33	15	26	1.95
1140880--1140982	46	2.2	46	88	6	147	29	20	18	32	1.96
1146496--1146576	21	3.7	21	72	15	74	32	24	18	24	1.97
1146497--1146588	45	2.1	44	87	6	132	29	25	19	26	1.99
1146572--1146605	17	2.0	17	100	0	68	17	29	23	29	1.97
1148954--1149056	45	2.3	46	86	8	149	28	20	20	31	1.97
1152608--1152648	12	3.6	12	80	12	50	60	0	0	39	0.96
1158736--1158772	18	2.1	18	94	0	65	16	21	32	29	1.95
1159024--1159058	16	2.2	16	94	0	61	37	0	11	51	1.38
1162211--1162648	218	2.0	219	99	0	869	30	16	25	27	1.97
1168772--1168806	2	17.5	2	100	0	70	48	0	0	51	1.00
1178017--1178060	22	2.2	20	84	15	56	27	29	11	31	1.91
1178076--1178116	20	2.0	20	85	9	55	26	26	2	43	1.67
1180819--1180883	20	3.3	19	85	6	76	36	6	18	38	1.76
1183760--1183816	17	3.4	17	76	11	55	28	5	8	57	1.50
1184015--1184071	21	2.9	19	80	12	71	26	10	10	52	1.68
1184281--1184345	20	3.3	20	86	2	87	32	10	23	33	1.89
1193177--1193205	2	14.5	2	100	0	58	51	0	0	48	1.00
1194621--1194680	27	2.2	27	96	0	111	38	5	11	45	1.63
1209737--1210078	170	2.0	171	98	1	661	24	19	10	45	1.81
1211807--1211849	20	2.2	20	83	8	52	30	11	11	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1214425--1214515	44	2.1	44	89	4	139	46	15	15	23	1.83
1217844--1217876	13	2.5	13	95	0	57	9	15	0	75	1.03
1230461--1230802	169	2.0	171	98	1	670	31	19	20	28	1.97
1232101--1232177	39	2.0	40	84	2	102	18	32	6	42	1.75
1233863--1234066	101	2.0	101	100	0	408	28	11	29	29	1.92
1237597--1237635	19	2.1	19	100	0	78	5	17	10	66	1.39
1244179--1244232	27	2.0	27	96	0	99	40	16	14	27	1.88
1246192--1246232	21	2.0	21	85	0	55	53	4	4	36	1.44
1257796--1257847	20	2.6	20	87	6	70	28	23	11	36	1.90
1258946--1259054	23	4.9	23	79	10	111	28	21	24	25	1.99
1266690--1266741	20	2.6	20	78	6	61	28	28	15	26	1.96
1269140--1269222	40	2.1	39	82	11	96	73	1	8	16	1.14
1271804--1271877	37	1.9	39	86	10	109	75	2	12	9	1.14
1271824--1271870	24	2.0	24	83	8	60	78	2	12	6	1.02
1271976--1272062	28	3.2	25	80	14	86	75	3	4	16	1.10
1271987--1272037	24	2.0	26	88	7	79	78	3	3	13	1.03
1273549--1273838	81	3.6	79	80	7	303	26	19	23	30	1.98
1273853--1273972	33	3.7	33	92	3	190	30	9	18	42	1.81
1273958--1274084	67	1.9	67	83	6	168	37	14	20	27	1.91
1274025--1274312	73	4.1	72	79	11	335	40	14	19	26	1.89
1274025--1274312	36	8.1	36	81	10	344	40	14	19	26	1.89
1274064--1274312	137	1.8	137	90	1	401	40	14	18	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274095--1274284	100	1.9	102	87	2	285	40	13	19	26	1.88
1273956--1274311	173	2.0	176	88	3	531	39	13	19	26	1.89
1274218--1274282	21	3.4	21	66	24	61	43	12	20	24	1.86
1275502--1275588	12	7.3	12	81	11	99	1	13	2	82	0.82
1275502--1275615	32	3.4	32	81	14	108	1	15	2	79	0.92
1275502--1275597	20	4.8	20	85	11	126	1	14	2	82	0.82
1275503--1275609	12	8.6	12	75	18	62	0	15	2	80	0.88
1275502--1275597	32	3.1	31	81	12	110	1	14	2	82	0.82
1275500--1275615	24	5.2	21	74	23	78	1	16	2	79	0.93
1276055--1276094	21	1.9	21	89	0	62	17	22	17	42	1.89
1276028--1276102	21	3.6	21	71	7	55	22	24	18	34	1.96
1276092--1276203	20	5.6	20	76	2	116	37	20	20	21	1.94
1276934--1277000	21	3.2	21	65	4	55	19	19	35	25	1.95
1278946--1279002	14	3.7	14	70	20	51	43	22	22	10	1.84
1278932--1279019	33	2.7	33	96	0	167	46	21	21	10	1.80
1278880--1279024	19	8.1	19	71	18	105	44	20	22	12	1.84
1279032--1279100	33	2.1	33	94	0	120	11	23	18	46	1.82
1279077--1279155	20	3.9	21	85	5	85	12	18	16	51	1.75
1279692--1279884	20	9.6	20	76	6	192	19	18	24	37	1.93
1279694--1279884	40	4.7	41	90	1	296	19	17	24	38	1.93
1279691--1279945	121	2.1	121	85	5	347	19	17	24	38	1.92
1279898--1279945	20	2.4	20	89	6	71	14	16	22	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279691--1279945	40	6.3	40	78	9	232	19	17	24	38	1.92
1279974--1280048	20	3.7	20	75	12	64	18	20	25	36	1.95
1281846--1281905	16	3.8	16	93	0	93	30	38	8	23	1.84
1282900--1282951	21	2.5	21	81	9	63	78	3	9	7	1.06
1283073--1283124	19	2.7	19	80	11	70	78	1	3	15	0.98
1283074--1283151	38	2.1	38	80	9	88	78	2	6	12	1.05
1285707--1285761	5	10.6	5	79	14	58	43	0	1	54	1.10
1285707--1285764	12	4.8	12	74	19	57	43	0	1	55	1.10
1286088--1286148	15	4.0	14	73	23	52	19	8	0	72	1.10
1286074--1286179	22	4.9	22	69	27	50	22	5	0	70	1.14
1286392--1286425	16	2.1	16	94	0	59	8	0	8	82	0.85
1286413--1286462	14	3.6	14	83	8	66	2	6	14	78	1.03
1287588--1287613	4	6.5	4	100	0	52	23	0	0	76	0.78
1296887--1296931	17	2.7	17	86	3	56	82	4	11	2	0.91
1298119--1298386	110	2.5	106	79	5	304	33	23	18	24	1.97
1299122--1299159	12	3.1	13	85	11	53	44	0	0	55	0.99
1299109--1299157	20	2.6	20	81	12	59	44	0	2	53	1.12
1299539--1299586	18	2.6	19	80	6	55	27	4	0	68	1.07
1305629--1305695	19	3.5	19	87	2	89	35	26	14	22	1.93
1305711--1305820	20	5.4	20	68	12	71	33	26	18	21	1.96
1305731--1305803	21	3.5	21	71	17	62	38	24	16	20	1.93
1305710--1305820	41	2.7	41	90	0	168	33	26	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306879--1306911	14	2.5	13	86	13	50	48	24	21	6	1.72
1306886--1306912	14	1.9	14	100	0	54	44	29	18	7	1.77
1308135--1308160	13	2.0	13	100	0	52	30	15	30	23	1.95
1308962--1308996	18	1.9	18	94	0	61	54	25	2	17	1.57
1309055--1309617	140	4.0	140	98	0	1072	27	13	15	42	1.85
1309595--1309817	54	3.9	60	82	7	245	34	22	19	23	1.96
1309588--1309818	20	12.1	20	78	10	243	35	21	19	24	1.96
1309821--1309959	20	6.9	20	91	0	215	10	17	23	48	1.79
1309833--1309974	60	2.4	60	89	2	196	12	16	23	46	1.82
1310049--1310157	36	3.3	36	69	21	119	53	15	3	27	1.59
1310026--1310179	63	2.4	63	93	4	254	50	17	3	28	1.61
1310157--1310193	14	2.6	14	91	0	65	45	21	2	29	1.65
1311581--1311672	42	2.2	42	84	3	114	23	17	35	22	1.95
1312179--1312222	20	2.2	20	91	0	70	50	20	13	15	1.78
1312209--1312277	20	3.5	20	83	0	93	36	24	20	18	1.95
1312269--1312348	33	2.4	33	82	0	88	46	21	20	12	1.83
1312299--1312329	14	2.2	14	94	0	53	51	22	19	6	1.69
1312313--1312349	19	1.9	19	94	0	65	48	27	16	8	1.74
1312360--1312433	33	2.2	34	82	2	87	17	18	16	47	1.83
1314367--1314437	19	3.7	20	81	5	83	47	22	15	14	1.81
1315012--1315117	20	5.2	20	80	6	124	27	16	26	29	1.97
1315138--1315178	21	2.0	21	85	0	55	36	19	19	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315224--1315260	19	1.9	19	88	0	56	24	16	27	32	1.96
1322667--1322763	38	2.5	39	78	8	101	38	23	7	30	1.82
1324154--1324212	30	2.0	30	96	0	109	28	16	13	40	1.87
1327194--1327252	12	4.9	12	95	0	100	42	20	16	20	1.89
1327519--1327556	17	2.2	18	86	13	53	28	0	13	57	1.36
1327619--1327671	25	2.1	25	96	0	97	43	7	1	47	1.42
1329049--1329086	19	2.0	19	100	0	76	68	26	0	5	1.11
1330441--1330467	13	2.1	13	100	0	54	48	14	0	37	1.45
1332321--1332345	12	2.1	12	100	0	50	44	8	8	40	1.63
1356062--1356121	11	5.5	11	90	4	95	60	18	1	20	1.45

Tables:   1   2   3   4   5   6   7   8   9   10