genome.fa.s2352.2.7.7.80.10.50.1000.7.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: VEPZ01002352.1 Hibiscus syriacus cultivar Beakdansim tig00004797_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2012169

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

This is table  7  of  10  ( 1099 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)
1279888--1279929	21	2.1	21	86	8	61	16	40	30	11	1.85
1279921--1279981	29	2.1	28	93	3	104	31	27	14	26	1.95
1281332--1281369	3	13.0	3	86	5	51	68	0	28	2	1.03
1285010--1285037	14	2.0	14	100	0	56	21	42	0	35	1.53
1286997--1287430	79	5.5	79	92	1	676	27	23	11	36	1.89
1287090--1287385	34	7.8	34	72	22	207	29	23	10	36	1.89
1287130--1287554	45	10.5	43	70	21	276	28	24	11	35	1.90
1287277--1287554	123	2.2	124	92	0	450	28	24	11	35	1.91
1287198--1287564	202	1.8	202	89	2	585	28	23	11	36	1.89
1287413--1287564	79	1.9	79	91	2	252	29	23	11	35	1.90
1289135--1289265	60	2.2	60	84	0	172	33	17	4	44	1.69
1289155--1289285	60	2.2	60	81	0	145	34	20	6	38	1.78
1294858--1294945	24	3.7	23	78	6	95	19	14	15	50	1.79
1294861--1294952	48	1.9	48	88	4	141	18	15	15	51	1.77
1295111--1295153	2	21.5	2	100	0	86	48	0	0	51	1.00
1296530--1296807	138	2.0	138	100	0	556	41	7	15	35	1.76
1297508--1297551	23	1.9	23	90	0	70	45	9	18	27	1.79
1300847--1300954	19	5.8	19	70	10	55	28	0	13	57	1.37
1300816--1301035	73	3.0	73	85	5	275	29	0	12	58	1.38
1301678--1301714	15	2.4	15	90	4	56	27	2	0	70	1.01
1301689--1301750	19	3.2	20	73	24	62	25	6	0	67	1.14
1306220--1306433	76	2.9	75	89	3	290	28	0	12	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307074--1307149	40	1.9	38	87	10	109	26	9	0	64	1.23
1308251--1308308	26	2.2	26	87	6	82	27	25	17	29	1.97
1312163--1312200	19	2.0	19	85	10	51	34	26	15	23	1.95
1313147--1313462	157	2.0	159	97	2	602	34	20	10	33	1.88
1314691--1314735	20	2.3	19	84	3	63	73	0	26	0	0.84
1315828--1315888	20	3.0	21	78	4	70	26	19	16	37	1.93
1327223--1327839	342	1.8	332	82	3	793	37	16	17	29	1.91
1327555--1329072	397	3.8	396	84	3	1811	36	18	17	27	1.94
1331287--1331335	25	2.0	25	91	0	80	30	22	14	32	1.93
1338798--1338827	7	4.4	7	95	4	53	0	0	10	90	0.47
1355116--1355275	38	4.2	38	91	1	232	30	26	21	21	1.98
1365184--1365213	15	2.1	15	93	6	53	16	0	0	83	0.65
1368244--1368292	21	2.3	21	92	0	89	22	26	24	26	2.00
1368390--1368480	45	2.0	45	91	2	146	27	19	25	27	1.99
1376986--1377052	29	2.3	29	94	0	116	28	25	22	23	1.99
1379269--1379319	16	3.2	16	85	0	66	76	3	1	17	1.03
1379262--1379318	5	11.0	5	74	7	51	73	3	1	21	1.07
1380995--1381213	111	2.0	111	93	0	375	26	22	19	31	1.97
1381376--1381462	16	5.5	16	71	11	54	57	8	2	32	1.40
1381683--1381718	18	1.9	19	88	5	56	30	5	8	55	1.52
1387816--1387852	14	2.6	14	100	0	74	32	0	27	40	1.57
1387843--1388046	45	4.6	44	93	1	309	38	5	24	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1387843--1388046	89	2.3	89	92	0	327	38	5	24	31	1.78
1388516--1388547	14	2.3	14	94	0	55	18	21	6	53	1.67
1392898--1392930	16	2.1	16	88	5	50	18	6	0	75	1.00
1394816--1394872	20	2.7	21	78	13	64	78	1	8	10	1.02
1394868--1394952	24	3.5	24	92	6	136	77	0	22	0	0.77
1394854--1394952	16	6.2	16	89	6	123	77	0	21	1	0.82
1394868--1394943	8	9.5	8	95	4	136	77	0	22	0	0.77
1397750--1397811	30	2.1	30	93	0	106	27	17	19	35	1.94
1402586--1402694	58	1.9	57	81	5	130	18	16	6	58	1.58
1404858--1405188	81	4.1	81	87	0	446	31	23	10	33	1.89
1405313--1405762	54	8.4	54	87	1	600	32	18	20	28	1.96
1405313--1405762	214	2.1	215	87	2	663	32	18	20	28	1.96
1407841--1407895	21	2.6	21	97	2	101	34	18	0	47	1.49
1408026--1408056	2	15.5	2	100	0	62	48	0	0	51	1.00
1411108--1411144	16	2.4	17	86	13	53	72	5	2	18	1.15
1411108--1411163	22	2.4	23	80	14	62	71	5	1	21	1.15
1411520--1411566	25	1.9	24	86	4	67	38	8	6	46	1.60
1412378--1412451	3	24.7	3	84	5	96	33	33	0	32	1.58
1412379--1412462	12	7.2	12	80	8	84	33	35	1	29	1.66
1413138--1413193	21	2.6	22	80	5	60	8	17	5	67	1.36
1416474--1416546	30	2.4	30	97	0	137	31	24	19	24	1.98
1416474--1416573	30	3.3	30	90	1	119	34	25	18	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416532--1416624	31	3.0	31	79	3	98	34	21	17	26	1.95
1420149--1420179	14	2.1	15	94	5	55	70	0	0	29	0.87
1425948--1426098	74	2.0	74	100	0	302	45	17	13	23	1.84
1430011--1430042	16	2.0	16	100	0	64	25	0	6	68	1.12
1432148--1432203	21	2.7	21	81	15	64	32	23	19	25	1.98
1432163--1432207	20	2.3	19	82	14	56	26	24	15	33	1.95
1433664--1433750	44	2.2	38	84	15	106	29	21	8	40	1.82
1433511--1433764	45	5.7	45	91	1	361	30	20	8	39	1.83
1434857--1434917	31	2.0	31	83	3	79	32	29	9	27	1.89
1437755--1437867	6	17.8	6	70	20	63	5	15	0	78	0.97
1437758--1437870	28	4.0	29	78	15	112	5	15	0	78	0.97
1437758--1437860	14	7.4	14	80	6	93	4	15	0	78	0.97
1437760--1437854	13	6.7	14	73	16	63	5	15	1	77	0.99
1437835--1437876	19	2.2	19	83	8	50	2	16	2	78	0.96
1440692--1441080	45	8.7	45	90	1	595	30	22	6	40	1.80
1443188--1443272	30	2.8	30	76	11	84	34	18	9	37	1.83
1444759--1444804	19	2.4	19	100	0	92	26	23	17	32	1.97
1447124--1447162	12	3.0	13	85	11	53	74	0	2	23	0.94
1447103--1447170	21	3.1	21	72	10	57	73	0	2	23	0.97
1447103--1447191	43	2.0	45	82	8	112	68	0	4	26	1.08
1447369--1447401	2	16.5	2	100	0	66	51	0	0	48	1.00
1447453--1447499	12	4.0	12	80	5	51	63	2	0	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1447436--1447483	23	2.0	24	84	11	64	70	0	2	27	0.98
1447906--1448007	37	2.8	37	89	0	141	30	14	14	40	1.86
1448760--1450172	106	13.3	106	91	0	2135	23	18	24	33	1.97
1451087--1451141	22	2.5	22	100	0	110	23	12	27	36	1.91
1455070--1455101	4	8.0	4	100	0	64	75	0	0	25	0.81
1455234--1455271	20	1.9	20	94	0	67	5	28	36	28	1.79
1456089--1456143	19	2.9	19	74	15	60	65	1	9	23	1.31
1456227--1456290	11	5.8	12	72	18	50	68	0	3	28	1.04
1456228--1456286	21	2.8	20	77	12	64	71	0	3	25	1.02
1456228--1456295	22	3.2	21	73	15	59	70	0	4	25	1.05
1456480--1456533	11	5.0	11	77	20	60	62	0	1	35	1.06
1456480--1456536	24	2.4	24	82	8	71	63	0	1	35	1.05
1456484--1456535	27	2.0	26	88	3	77	61	0	1	36	1.07
1456591--1456641	2	25.5	2	100	0	102	50	0	0	49	1.00
1457591--1457629	12	3.1	13	81	7	53	46	7	10	35	1.67
1460708--1460790	39	2.1	39	86	0	112	30	22	18	28	1.97
1461732--1461822	3	31.0	3	76	12	64	40	4	0	54	1.20
1461732--1461795	8	7.8	8	77	20	53	40	1	0	57	1.08
1461733--1461825	27	3.6	25	82	13	91	41	4	0	53	1.20
1462822--1462858	19	1.9	19	89	10	58	21	0	5	72	1.04
1462826--1462864	18	2.0	20	85	9	55	25	0	5	69	1.09
1462826--1462867	20	2.1	20	86	8	59	26	0	4	69	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1470350--1470576	99	2.3	99	92	0	382	32	15	18	33	1.92
1470467--1470730	119	2.2	118	95	2	474	31	15	19	33	1.93
1470863--1470953	3	31.0	3	75	12	55	39	6	0	53	1.27
1470870--1470924	6	7.9	7	79	20	62	41	1	0	56	1.10
1470865--1470964	30	3.2	32	77	18	102	42	7	0	51	1.29
1470863--1470926	8	7.8	8	75	20	53	40	3	0	56	1.15
1474717--1474886	82	2.1	82	98	0	331	38	34	12	14	1.83
1479407--1479723	55	5.7	55	89	4	372	35	11	17	35	1.86
1479871--1480039	81	2.1	81	87	2	241	36	11	23	29	1.89
1481591--1481700	42	2.6	42	88	1	168	33	31	10	23	1.89

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