genome.fa.s6093.2.7.7.80.10.50.1000.6.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: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3172561

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1555 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)
1179116--1179171	23	2.4	23	90	0	85	23	17	12	46	1.82
1180375--1180487	60	1.9	60	81	0	136	43	5	16	34	1.71
1180514--1180560	24	1.9	25	91	4	78	44	6	12	36	1.68
1181250--1181321	32	2.2	32	87	0	108	30	31	16	20	1.95
1181352--1181387	16	2.2	16	90	0	54	25	33	11	30	1.90
1186169--1186219	24	2.1	24	85	0	66	35	9	19	35	1.85
1186229--1186286	24	2.5	23	78	13	57	36	18	15	29	1.92
1189824--1189881	7	8.4	7	83	9	75	36	10	0	53	1.35
1189830--1189910	27	3.2	25	81	16	87	37	8	1	53	1.40
1189837--1189875	20	1.9	21	94	5	71	38	10	0	51	1.36
1190000--1190046	2	24.0	2	95	4	87	48	0	0	51	1.00
1190154--1190186	13	2.5	14	85	14	52	33	0	0	66	0.92
1190120--1190393	141	2.0	138	83	5	351	27	10	6	55	1.59
1192084--1192284	95	2.1	95	84	0	267	37	14	22	24	1.92
1192728--1193100	81	4.6	81	91	2	586	35	11	22	30	1.90
1195101--1195235	45	3.0	45	97	0	252	42	13	22	21	1.87
1195657--1195776	58	2.1	58	80	9	129	71	7	8	12	1.30
1195972--1196032	14	4.4	14	73	18	56	70	1	1	26	1.06
1195984--1196040	17	3.2	17	75	22	55	68	3	1	26	1.15
1196060--1196164	24	4.4	24	68	17	74	64	1	3	29	1.21
1196071--1196125	19	2.8	19	75	17	58	70	0	0	29	0.87
1196035--1196189	72	2.1	74	92	4	271	64	1	3	29	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196147--1196200	27	2.0	28	81	3	65	66	1	3	27	1.19
1197928--1198075	73	2.0	74	86	1	208	24	18	22	34	1.96
1198010--1198270	106	2.5	106	92	0	432	20	19	25	34	1.96
1198514--1198897	110	3.5	110	84	4	553	23	18	22	34	1.96
1198480--1198897	216	1.9	217	90	0	658	24	17	23	34	1.96
1199414--1199483	35	2.0	35	82	2	86	41	12	21	24	1.88
1199655--1199730	36	2.1	37	90	7	120	38	15	22	23	1.93
1200217--1200252	18	2.0	18	94	0	63	41	33	8	16	1.78
1201315--1201371	18	3.1	19	75	10	73	0	14	7	78	0.94
1201315--1201377	16	3.8	16	78	17	74	0	14	7	77	0.97
1201327--1201364	11	3.7	10	83	16	51	0	13	7	78	0.94
1202452--1202818	184	2.0	184	97	0	689	36	14	16	32	1.89
1204992--1205042	6	8.3	6	83	12	68	80	0	0	19	0.71
1204993--1205047	10	5.4	10	84	4	65	78	0	0	21	0.76
1205692--1205722	8	3.9	8	100	0	62	51	0	0	48	1.00
1207395--1207971	124	4.9	110	79	11	553	26	19	15	38	1.92
1207618--1207958	124	2.8	124	94	0	583	25	18	15	40	1.90
1207885--1207930	23	2.0	23	83	12	58	15	26	6	52	1.67
1208332--1208411	22	3.6	21	74	15	72	40	13	12	33	1.83
1208599--1208702	54	1.9	54	80	3	120	28	20	9	41	1.84
1213323--1213380	2	29.0	2	100	0	116	50	0	0	50	1.00
1218411--1218447	2	19.5	2	83	10	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218433--1218711	146	1.9	145	85	5	384	45	7	9	37	1.64
1218878--1218916	18	2.2	17	86	4	51	64	10	0	25	1.25
1220630--1220677	18	2.8	17	78	12	53	79	4	4	12	1.02
1220989--1221041	26	2.0	28	81	7	65	66	1	3	28	1.20
1222264--1222504	45	5.4	45	84	2	313	45	12	19	21	1.83
1222385--1222455	21	3.2	21	65	18	54	47	11	16	23	1.79
1228584--1228624	21	2.1	19	86	9	55	34	9	19	36	1.85
1229197--1229521	45	7.2	45	90	0	463	44	12	21	21	1.85
1229197--1229521	134	2.4	135	89	1	490	44	12	21	21	1.85
1229197--1229521	179	1.8	180	87	2	465	44	12	21	21	1.85
1235773--1236326	81	6.8	81	92	0	928	34	12	24	29	1.92
1237353--1237423	30	2.4	30	78	0	79	30	11	16	40	1.84
1242831--1243393	81	7.0	81	91	0	910	33	11	23	30	1.91
1245241--1245281	11	3.5	12	83	12	50	31	0	2	65	1.05
1245528--1245568	21	2.0	20	85	4	55	60	0	0	39	0.96
1251565--1251899	131	2.6	131	88	0	490	35	9	15	39	1.80
1255646--1255729	38	2.2	38	87	4	116	53	2	7	36	1.41
1255654--1255721	17	3.8	17	73	21	57	54	2	8	33	1.47
1256195--1256253	31	1.9	31	92	0	100	40	6	10	42	1.65
1256278--1256320	22	2.0	22	100	0	86	51	13	0	34	1.42
1256280--1256328	22	2.2	22	88	3	71	55	12	2	30	1.48
1256268--1256787	54	9.4	54	75	17	471	53	12	0	34	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256283--1256599	80	3.9	80	87	6	483	52	13	0	33	1.43
1256402--1256455	14	3.6	14	72	18	54	57	5	0	37	1.22
1256380--1256665	32	8.8	32	72	16	196	53	12	0	34	1.39
1256300--1256743	144	3.2	139	83	12	527	52	13	0	33	1.42
1256268--1256626	166	2.2	166	96	1	666	52	12	0	34	1.41
1256444--1256486	22	2.0	22	100	0	86	51	13	0	34	1.42
1256446--1256494	22	2.2	22	88	3	71	55	14	0	30	1.40
1256496--1256566	26	3.0	23	76	13	81	52	14	0	33	1.42
1256601--1256653	14	3.5	14	72	18	52	56	5	0	37	1.23
1256644--1256718	22	3.2	23	75	17	82	54	17	0	28	1.43
1256690--1256787	32	3.4	31	73	26	115	54	10	0	35	1.35
1256722--1256824	22	4.5	22	70	7	80	53	8	0	37	1.32
1256767--1256893	15	8.5	15	75	21	124	54	2	0	43	1.13
1256713--1256895	69	2.7	67	83	7	210	54	4	0	40	1.22
1256713--1256916	69	3.0	66	79	9	184	53	5	0	41	1.24
1258516--1258578	32	2.0	32	84	6	83	53	7	1	36	1.40
1258715--1258850	33	4.2	33	75	7	109	49	9	4	36	1.56
1260479--1260537	29	2.0	29	96	0	109	47	11	23	16	1.80
1264800--1264990	29	6.6	29	90	2	276	37	20	5	35	1.77
1268139--1268429	109	2.7	109	91	0	456	32	20	19	27	1.97
1268139--1268429	54	5.4	54	85	1	402	32	20	19	27	1.97
1274035--1274094	3	20.3	3	93	6	97	30	1	0	68	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275348--1275397	3	16.7	3	100	0	100	34	0	0	66	0.92
1279653--1279696	20	2.1	21	87	8	63	61	9	9	20	1.53
1281290--1281747	139	3.3	139	86	5	583	25	19	17	36	1.94
1282195--1282257	11	5.9	11	73	14	60	57	1	1	39	1.18
1282759--1282820	7	8.9	7	89	0	88	45	37	0	17	1.49
1285148--1285177	15	2.0	15	100	0	60	60	0	20	20	1.37
1285151--1285185	15	2.3	15	90	0	52	65	0	17	17	1.27
1285200--1285285	32	2.7	30	76	16	77	72	2	8	17	1.20
1285227--1285290	23	3.0	22	80	13	62	73	1	9	15	1.16
1285236--1285290	23	2.4	23	80	14	69	74	1	7	16	1.12
1285324--1285384	29	2.1	29	85	11	81	75	0	1	22	0.89
1285315--1285405	30	2.9	33	77	22	97	71	1	2	25	1.04
1285303--1285381	25	3.5	22	74	16	63	74	1	2	21	1.01
1285330--1285415	36	2.4	37	88	5	122	69	0	2	27	1.00
1285462--1285521	22	2.8	21	76	14	61	68	5	5	21	1.29
1285847--1285915	34	2.0	34	94	0	120	31	14	11	42	1.82
1286500--1286758	98	2.6	98	81	4	293	19	20	25	34	1.96
1286500--1286892	105	3.8	102	78	7	334	20	20	25	33	1.97
1287563--1287690	31	3.9	31	70	17	73	33	12	20	33	1.90
1287465--1287655	67	2.8	67	84	3	247	38	12	20	28	1.89
1287612--1287726	33	3.5	33	86	5	153	31	11	19	38	1.87
1287768--1288207	37	12.9	36	69	18	193	38	11	19	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287896--1287954	30	2.0	30	86	6	84	32	10	16	40	1.82
1287909--1288207	100	3.0	102	93	3	505	37	12	19	30	1.88
1289443--1289482	20	1.9	20	85	10	53	32	7	32	27	1.85
1289692--1289727	15	2.4	15	90	0	54	50	5	0	44	1.25
1293723--1293762	20	1.9	20	85	10	53	32	7	32	27	1.85
1293972--1294007	15	2.4	15	90	0	54	50	5	0	44	1.25
1294980--1295030	22	2.3	22	96	0	93	25	11	27	35	1.91
1295665--1295757	7	12.7	7	74	15	64	1	12	7	78	1.01
1295711--1295763	16	3.5	15	80	7	54	0	11	7	81	0.88
1295717--1295763	15	3.1	16	82	14	55	0	10	8	80	0.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13