genome.fa.s8488.2.7.7.80.10.50.1000.6.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  6  of  54  ( 6450 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)
1257052--1257156	40	2.5	40	76	4	111	26	32	18	22	1.97
1257135--1257251	48	2.4	48	91	0	189	29	23	17	29	1.97
1272565--1272594	2	15.0	2	100	0	60	50	0	0	50	1.00
1274836--1274861	13	2.0	13	100	0	52	23	30	0	46	1.53
1276003--1276044	21	2.0	21	95	0	75	35	38	14	11	1.83
1276603--1276650	21	2.3	21	85	7	62	25	6	37	31	1.81
1277118--1277305	65	2.9	65	80	15	230	31	22	18	27	1.97
1283103--1283167	23	2.9	23	77	4	80	27	24	24	23	2.00
1283586--1283610	13	1.9	13	100	0	50	32	8	8	52	1.60
1285199--1285250	2	26.5	2	96	3	97	50	0	0	50	1.00
1285705--1285912	65	3.2	64	79	12	237	32	24	16	26	1.96
1287013--1287084	2	36.0	2	100	0	144	50	0	0	50	1.00
1290234--1290381	73	2.0	73	97	0	278	42	7	12	37	1.71
1292922--1292946	11	2.3	11	100	0	50	64	0	0	36	0.94
1296040--1296079	19	2.0	20	86	13	57	47	5	17	30	1.69
1296146--1296390	83	3.0	83	87	5	361	45	9	4	40	1.57
1301855--1301937	41	2.0	41	83	4	105	24	18	10	46	1.80
1301805--1301980	47	3.9	47	74	13	170	22	20	13	44	1.85
1301818--1301980	88	1.9	88	85	0	227	22	20	12	44	1.84
1301885--1302047	67	2.4	67	92	1	263	20	22	12	44	1.85
1301968--1302195	47	4.9	47	88	0	330	22	22	11	43	1.85
1301885--1302047	20	7.4	20	72	18	110	20	22	12	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302610--1302755	41	3.2	41	68	22	112	24	24	12	38	1.90
1307056--1307102	21	2.2	21	100	0	94	23	29	23	23	1.99
1311132--1311169	20	1.9	20	84	10	51	28	18	15	36	1.92
1317429--1317501	20	3.3	20	66	23	56	23	21	10	43	1.84
1317439--1317528	27	3.6	26	70	21	84	22	18	12	46	1.82
1317407--1317689	47	6.0	47	87	1	397	21	20	12	45	1.84
1317469--1317756	67	4.2	67	73	19	261	20	21	13	44	1.86
1317589--1317669	27	3.3	26	64	29	68	19	22	14	43	1.88
1317656--1317756	20	4.7	20	76	15	103	19	26	14	38	1.91
1331936--1332096	64	2.5	63	86	5	216	33	17	21	27	1.96
1333491--1333797	149	2.1	149	99	0	605	28	15	21	34	1.94
1333773--1333817	23	2.0	23	86	0	63	24	26	24	24	2.00
1339037--1339094	3	18.0	3	80	16	55	63	0	0	36	0.94
1339037--1339095	22	2.7	22	87	7	77	64	0	0	35	0.94
1339037--1339095	10	6.0	10	75	16	61	64	0	0	35	0.94
1346634--1346671	19	2.0	20	89	5	60	42	15	23	18	1.89
1349644--1349670	2	13.5	2	100	0	54	48	0	0	51	1.00
1354612--1354645	18	1.9	17	88	5	50	52	8	2	35	1.47
1358320--1358356	19	1.9	19	94	0	65	37	5	21	35	1.77
1358932--1358965	17	2.0	17	94	0	59	32	5	17	44	1.73
1363308--1363364	22	2.6	22	91	0	87	40	19	17	22	1.91
1375719--1375762	19	2.2	21	88	8	65	43	18	18	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377107--1377137	13	2.4	13	94	0	53	29	19	19	32	1.96
1377117--1377274	85	1.9	85	85	7	223	32	19	17	30	1.95
1378889--1378924	17	2.1	17	94	0	63	58	5	13	22	1.56
1385465--1385752	45	6.4	45	84	6	363	42	15	18	23	1.88
1385481--1385749	89	3.0	88	86	2	378	42	14	19	23	1.88
1385465--1385752	134	2.1	135	87	3	413	42	15	18	23	1.88
1386567--1386623	3	18.7	3	75	10	53	31	3	3	61	1.30
1387070--1387104	18	1.9	18	100	0	70	77	5	11	5	1.12
1391336--1391500	85	2.0	83	86	8	235	41	14	19	24	1.89
1391317--1391508	43	4.5	45	78	14	194	41	16	19	22	1.90
1394116--1394146	16	1.9	16	100	0	62	32	19	22	25	1.97
1394137--1394171	17	2.0	18	94	5	63	54	17	11	17	1.71
1408174--1408299	47	2.8	45	83	5	155	40	7	22	29	1.82
1409883--1409918	6	5.8	6	96	3	63	19	16	30	33	1.94
1411013--1411061	13	3.9	12	87	12	64	81	6	12	0	0.86
1411006--1411113	6	17.3	6	70	20	62	75	4	17	1	1.05
1411009--1411082	15	4.7	15	76	15	69	78	5	14	1	1.00
1411017--1411106	27	3.4	26	73	18	69	76	5	15	2	1.07
1411045--1411100	21	2.8	20	84	15	71	73	5	17	3	1.17
1415110--1415235	47	2.8	45	83	5	155	40	7	22	29	1.82
1417591--1417633	22	2.0	22	90	9	70	39	16	18	25	1.91
1426462--1426987	54	9.8	54	90	1	788	36	17	13	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1432051--1432103	19	2.6	21	76	8	56	30	16	13	39	1.87
1432128--1432178	20	2.5	20	87	0	75	29	23	11	35	1.90
1437950--1437988	20	2.0	21	85	10	55	28	0	17	53	1.44
1438323--1438360	20	1.9	20	94	0	67	18	26	31	23	1.97
1438324--1438381	20	2.8	20	84	7	62	20	25	29	24	1.99
1440582--1440641	30	2.0	31	83	3	77	26	8	10	55	1.61
1441522--1441571	19	2.6	20	87	6	68	38	12	6	44	1.66
1442273--1442318	24	1.9	24	86	8	67	76	4	15	4	1.11
1451026--1451170	72	2.0	72	98	0	281	46	17	11	24	1.80
1468553--1468664	31	3.6	31	70	12	86	16	10	18	54	1.70
1470160--1470209	17	2.9	17	85	11	59	30	18	24	28	1.97
1476772--1476809	19	2.0	19	85	10	51	34	5	0	60	1.19
1477386--1477442	30	1.9	30	92	0	96	52	10	14	22	1.71
1478191--1478230	20	2.0	20	85	0	53	40	10	15	35	1.80
1479104--1479147	14	3.2	14	83	6	63	15	25	22	36	1.94
1500233--1500262	7	4.4	7	91	8	53	86	0	0	13	0.57
1500233--1500262	13	2.2	13	94	5	51	86	0	0	13	0.57
1508812--1508846	2	17.5	2	100	0	70	51	0	0	48	1.00
1517312--1517352	21	2.0	21	90	0	64	63	12	17	7	1.50
1524222--1524270	23	2.1	23	92	0	80	28	40	18	12	1.86
1524296--1524339	16	2.8	16	85	0	61	25	18	20	36	1.95
1528032--1528081	23	2.2	23	81	0	55	26	40	18	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1531770--1532120	131	2.7	132	90	1	553	31	11	15	41	1.83
1533049--1533111	28	2.2	28	91	2	99	22	20	22	34	1.96
1536974--1537100	46	2.8	45	83	10	168	40	5	20	33	1.76
1537545--1537590	23	2.0	23	100	0	92	17	34	26	21	1.95
1549166--1549223	29	2.0	29	100	0	116	44	17	24	13	1.85
1549446--1549613	90	1.9	89	94	1	300	35	12	7	45	1.69
1564810--1565216	131	3.1	131	77	12	393	31	21	14	32	1.93
1567430--1567797	130	2.8	130	85	3	434	32	10	16	40	1.83
1571334--1571372	19	2.1	19	100	0	78	15	33	15	35	1.89
1584940--1584985	23	2.0	23	82	0	56	36	19	19	23	1.95
1585719--1585797	31	2.5	31	89	0	122	32	20	15	31	1.93
1587895--1587934	21	1.9	21	94	0	71	35	20	20	25	1.96
1593175--1593242	29	2.3	29	94	0	118	50	27	5	16	1.68
1619956--1619980	12	2.1	12	100	0	50	8	28	0	64	1.22
1624745--1624785	20	2.1	19	90	4	64	19	26	17	36	1.94
1627606--1627652	24	2.0	24	86	0	67	31	19	14	34	1.92
1627619--1627672	24	2.2	24	86	0	72	29	18	18	33	1.95
1627633--1627681	24	2.0	24	84	0	62	26	16	20	36	1.93
1635760--1635807	2	24.0	2	100	0	96	50	0	0	50	1.00
1636722--1636770	20	2.6	18	80	6	53	71	6	2	20	1.18
1637284--1637547	113	2.3	113	81	6	284	26	17	15	40	1.89
1637589--1637938	71	5.0	72	86	5	518	40	13	16	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637606--1637935	37	9.3	37	63	13	149	39	13	16	30	1.87
1637591--1637938	137	2.5	142	91	4	555	40	13	15	30	1.86
1638246--1638323	17	4.5	17	88	6	120	24	34	15	25	1.95
1638306--1638431	63	2.0	63	88	3	189	31	23	16	27	1.96
1644130--1644208	42	1.9	41	86	2	113	30	26	17	25	1.97
1646655--1646861	64	3.2	63	83	8	204	30	25	17	27	1.97
1647574--1647899	143	2.3	142	86	4	442	40	13	15	30	1.85
1647574--1647899	73	4.6	73	86	4	443	40	13	15	30	1.85
1649741--1649790	16	3.5	14	80	20	59	2	12	0	86	0.67
1649743--1649790	17	2.9	16	79	14	53	2	10	0	87	0.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54