genome.fa.s8010.2.7.7.80.10.50.1000.6.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: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3152856

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  6  of  14  ( 1680 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)
1194111--1194145	18	1.9	18	88	0	52	25	0	8	65	1.21
1198226--1198256	2	15.5	2	100	0	62	48	0	0	51	1.00
1217254--1217336	38	2.2	37	83	6	105	33	18	16	31	1.93
1217265--1217341	38	2.0	38	92	0	127	33	16	19	29	1.94
1217621--1217943	21	15.6	20	78	11	262	23	21	24	30	1.99
1217621--1217943	104	3.1	104	90	4	458	23	21	24	30	1.99
1217661--1217943	125	2.3	125	98	0	539	22	21	25	30	1.99
1221000--1221035	2	18.0	2	100	0	72	50	0	0	50	1.00
1221673--1221777	21	5.1	21	75	4	115	17	18	25	39	1.92
1221677--1221777	41	2.5	41	96	0	184	17	18	24	38	1.93
1221702--1221774	20	3.6	20	81	3	92	13	20	24	41	1.89
1221896--1221926	6	5.2	6	100	0	62	35	48	16	0	1.46
1222540--1222605	19	3.3	19	72	12	69	40	21	19	18	1.91
1222555--1222626	22	3.4	22	71	11	78	37	26	19	16	1.93
1222540--1222646	41	2.6	41	92	4	171	40	23	20	15	1.91
1222618--1222687	20	3.5	20	74	3	77	40	24	21	14	1.90
1222615--1222715	41	2.5	41	95	0	175	37	22	19	19	1.94
1222638--1222711	21	3.6	21	68	3	69	35	24	18	21	1.96
1223610--1223724	12	9.4	12	66	23	62	64	2	2	30	1.21
1223606--1223668	25	2.5	24	73	26	60	65	0	1	33	1.03
1223696--1223732	14	2.5	15	87	12	51	70	0	0	29	0.88
1224791--1225074	123	2.3	123	93	1	471	25	19	15	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226190--1226260	33	2.2	33	97	0	133	32	5	12	49	1.64
1226270--1226304	18	1.9	18	94	0	61	57	2	5	34	1.37
1226650--1226724	12	6.5	11	76	15	71	9	8	0	82	0.84
1226652--1226743	16	6.0	14	76	17	51	9	10	0	79	0.94
1226656--1226727	19	3.8	18	76	18	67	9	8	0	81	0.86
1226650--1226742	49	1.9	48	80	10	109	9	9	0	80	0.90
1238209--1238323	12	9.4	12	68	23	62	64	2	2	30	1.21
1238180--1238267	23	3.6	24	69	24	60	62	1	2	34	1.15
1238304--1238352	22	2.3	21	93	6	82	71	0	2	26	0.97
1239677--1239724	3	16.7	3	83	16	66	66	2	0	31	1.03
1239678--1239724	20	2.3	21	89	7	71	68	2	0	29	1.02
1245522--1245559	15	2.6	14	88	12	51	44	2	0	52	1.14
1245779--1245839	3	20.3	3	93	0	95	62	0	4	32	1.17
1246472--1246512	21	1.9	22	90	5	66	46	2	9	41	1.50
1259412--1259997	294	2.0	291	95	4	1056	30	14	22	32	1.93
1267621--1267692	30	2.4	29	80	17	76	48	0	4	47	1.21
1272773--1272811	18	2.4	15	87	12	51	30	7	0	61	1.24
1275630--1275669	17	2.3	18	91	4	64	62	0	0	37	0.95
1276266--1276659	212	1.9	214	87	5	584	43	8	3	43	1.52
1277922--1277960	20	2.0	19	85	5	51	41	2	0	56	1.13
1277955--1278004	8	6.0	8	81	9	64	62	0	0	38	0.96
1277963--1278014	14	3.7	14	75	15	54	59	0	3	36	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288130--1288230	34	3.0	34	85	0	139	38	1	3	55	1.30
1288749--1288842	21	4.5	21	92	5	145	20	27	34	18	1.95
1288846--1288893	21	2.3	21	85	0	60	22	12	39	25	1.89
1290627--1290711	32	2.6	32	81	5	98	60	2	0	37	1.10
1290622--1290702	35	2.4	34	81	8	103	61	1	0	37	1.04
1290655--1290734	34	2.3	34	81	12	92	65	5	0	30	1.14
1291549--1291651	30	3.5	30	82	12	149	42	9	4	42	1.59
1291529--1291652	59	2.1	60	98	1	241	41	9	4	44	1.58
1296492--1296531	20	1.9	22	90	10	66	57	12	5	25	1.55
1297312--1297345	9	3.9	9	84	7	52	35	0	2	61	1.11
1297311--1297349	17	2.4	17	95	4	71	33	0	5	61	1.18
1299693--1299763	34	2.1	34	87	10	101	19	2	14	63	1.42
1313949--1314115	43	3.9	43	87	0	226	27	20	22	29	1.98
1314103--1314301	43	4.7	43	84	1	247	32	20	21	26	1.98
1313974--1314301	43	7.7	43	80	5	210	29	20	22	27	1.98
1317390--1317814	41	10.3	41	78	4	379	34	18	18	28	1.95
1317390--1317814	82	5.1	82	82	4	417	34	18	18	28	1.95
1317390--1317748	125	2.9	123	83	2	412	34	18	19	27	1.95
1317390--1317746	166	2.2	166	83	4	443	34	18	19	27	1.95
1317390--1317814	125	3.4	123	81	3	370	34	18	18	28	1.95
1317390--1317814	166	2.6	165	77	5	392	34	18	18	28	1.95
1318940--1318964	12	2.1	12	100	0	50	40	0	8	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322211--1322517	149	2.1	149	94	0	542	35	20	15	28	1.93
1327547--1327591	23	2.0	23	86	0	63	26	26	24	22	2.00
1327559--1327873	149	2.1	149	95	1	569	34	20	16	27	1.95
1334891--1334924	14	2.5	14	85	4	52	67	0	0	32	0.91
1335303--1335389	33	2.6	33	85	1	111	27	11	20	40	1.87
1335432--1335487	3	18.7	3	79	17	55	69	0	0	30	0.89
1335430--1335490	8	7.6	8	72	20	56	70	0	0	29	0.88
1335833--1336344	84	6.2	82	79	6	487	24	19	25	30	1.98
1335833--1336344	169	3.1	161	81	5	560	24	19	25	30	1.98
1336461--1337110	110	6.0	110	92	1	1042	24	19	23	33	1.97
1340724--1340852	32	4.1	31	79	10	136	33	18	19	28	1.96
1341625--1341669	21	2.1	21	87	0	63	15	24	28	31	1.96
1344964--1345093	31	4.2	31	76	7	86	32	22	19	26	1.97
1344986--1345114	63	2.1	61	87	7	188	32	20	20	27	1.97
1344989--1345116	31	4.1	31	80	9	152	33	21	18	26	1.96
1347558--1347591	14	2.4	14	85	0	50	67	0	0	32	0.91
1347566--1347608	14	2.9	14	83	16	52	58	0	0	41	0.98
1347658--1347691	15	2.2	16	89	5	52	76	0	2	20	0.92
1347652--1347699	20	2.3	21	79	10	55	79	0	4	16	0.89
1347966--1348052	33	2.6	34	89	8	119	27	13	21	36	1.92
1347982--1348052	33	2.2	33	94	5	126	26	11	22	39	1.88
1348092--1348156	31	2.1	30	86	13	89	72	0	1	26	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348092--1348155	17	3.7	18	80	14	57	71	0	1	26	0.94
1348096--1348158	25	2.4	25	75	19	67	69	0	1	28	0.97
1348675--1348809	20	6.7	20	78	7	103	34	23	17	24	1.96
1348685--1348803	61	2.0	61	86	0	166	35	24	16	23	1.95
1349283--1349331	20	2.5	20	82	0	53	18	18	24	38	1.93
1349299--1349341	20	2.2	20	91	0	68	9	18	20	51	1.74
1350661--1350705	18	2.5	18	85	0	63	26	42	15	15	1.87
1351187--1351232	20	2.3	20	85	7	58	39	26	19	15	1.91
1351226--1351289	19	3.6	19	74	20	75	46	20	18	14	1.83
1351307--1351364	14	3.9	14	79	16	62	12	17	22	48	1.80
1351302--1351380	32	2.4	33	93	2	133	12	18	21	46	1.82
1353269--1353304	14	2.6	14	90	0	54	30	0	22	47	1.52
1353431--1353476	14	2.8	17	75	25	53	45	19	21	13	1.84
1353495--1353571	20	3.9	20	94	3	138	15	23	24	36	1.94
1353495--1353571	39	2.0	40	94	2	138	15	23	24	36	1.94
1354032--1354121	14	5.7	14	69	23	54	47	20	20	12	1.81
1354045--1354106	19	3.5	19	70	20	62	48	17	19	14	1.81
1354032--1354118	33	2.6	33	88	0	120	48	19	19	12	1.80
1354118--1354241	33	3.7	33	83	1	140	16	23	15	45	1.85
1355031--1355077	24	2.0	24	91	0	76	25	19	21	34	1.96
1357551--1357642	19	5.4	19	71	24	96	45	18	21	14	1.84
1357566--1357656	14	5.8	14	70	22	56	45	18	24	12	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357551--1357678	33	3.8	33	94	1	211	45	18	22	13	1.84
1357678--1357722	18	2.4	19	92	7	83	11	15	26	46	1.79
1357693--1357766	33	2.3	33	79	6	80	12	21	22	43	1.86
1361492--1361589	20	4.9	20	83	6	137	46	18	23	11	1.81
1361490--1361589	40	2.5	39	91	1	173	47	18	24	11	1.80
1361593--1361718	20	6.7	19	78	11	127	12	22	18	46	1.82
1362244--1362377	41	3.3	41	77	9	139	24	16	23	35	1.94
1362260--1362373	20	5.7	20	76	6	86	25	17	24	32	1.97
1362300--1362395	41	2.3	41	85	3	122	22	19	21	35	1.96
1362363--1362414	20	2.5	21	87	3	70	21	23	17	38	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14