genome.fa.s8138.2.7.7.80.10.50.1000.7.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: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3838456

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  7  of  18  ( 2117 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)
1335458--1335844	128	3.0	127	80	8	428	34	19	22	24	1.96
1338737--1338777	21	2.0	21	85	0	55	29	14	43	12	1.82
1339025--1339320	81	3.7	82	77	10	211	34	19	14	31	1.93
1342816--1343046	47	5.0	48	73	17	195	34	4	16	44	1.69
1342891--1343066	4	43.8	4	73	15	87	32	3	17	46	1.65
1343679--1343901	108	2.1	109	93	0	385	39	22	4	33	1.73
1344974--1345229	128	2.0	128	98	1	496	26	18	27	27	1.98
1346492--1346542	18	2.8	18	77	11	50	50	1	1	45	1.24
1350554--1350640	36	2.5	35	83	7	104	31	8	17	43	1.78
1354984--1355064	34	2.4	35	81	6	94	29	9	18	41	1.83
1362671--1362697	2	13.5	2	100	0	54	51	0	0	48	1.00
1369839--1369882	17	2.6	17	82	3	63	61	0	0	38	0.96
1373165--1373201	3	12.3	3	88	0	56	35	2	0	62	1.10
1379701--1379727	10	2.7	10	100	0	54	7	11	18	62	1.50
1400392--1400443	23	2.1	24	82	10	61	48	3	5	42	1.45
1410127--1410218	23	4.1	22	83	9	82	33	23	14	28	1.94
1410137--1410218	23	3.7	23	85	6	89	32	25	14	26	1.95
1416894--1416943	19	2.7	19	93	6	86	30	34	18	18	1.94
1416829--1416989	80	2.0	82	88	2	245	29	26	16	27	1.97
1416814--1417006	82	2.3	83	84	6	250	29	25	16	27	1.97
1431479--1431558	22	3.6	22	91	3	117	36	25	8	30	1.86
1436660--1436731	35	2.1	35	97	0	135	40	9	20	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437106--1437145	18	2.3	18	83	8	57	25	5	2	67	1.23
1437404--1437444	2	20.5	2	100	0	82	48	0	0	51	1.00
1437436--1437521	41	2.1	42	82	10	106	29	5	3	61	1.36
1445791--1446558	106	7.4	106	85	3	1022	34	22	18	24	1.96
1447043--1447114	35	2.1	35	100	0	144	40	11	20	27	1.87
1447489--1447528	18	2.3	18	83	8	57	25	5	2	67	1.23
1448084--1448132	2	24.5	2	100	0	98	48	0	0	51	1.00
1448184--1448235	9	5.7	9	78	17	54	17	5	0	76	0.97
1448172--1448235	5	13.8	5	76	15	50	15	6	0	78	0.95
1448175--1448250	14	5.6	13	76	11	64	14	9	0	76	1.02
1448926--1448965	21	2.0	21	85	5	55	30	20	20	30	1.97
1455643--1455690	19	2.5	19	100	0	96	22	35	20	20	1.96
1458052--1458080	2	14.5	2	100	0	58	48	0	0	51	1.00
1458503--1458530	2	14.0	2	100	0	56	50	0	0	50	1.00
1459092--1459139	16	2.8	16	81	12	51	16	8	16	58	1.61
1459804--1459858	3	18.3	3	87	7	76	63	0	1	34	1.05
1460063--1460475	111	3.7	111	88	0	605	28	16	23	30	1.97
1460477--1460550	37	2.0	37	86	0	103	21	16	18	43	1.88
1460596--1460664	23	3.2	23	63	23	58	31	15	26	26	1.96
1460551--1460731	42	4.3	42	88	0	254	31	19	24	24	1.98
1463374--1463426	10	5.3	10	86	13	58	7	13	0	79	0.93
1463385--1463415	16	1.9	16	93	0	53	3	12	0	83	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1463361--1463427	27	2.5	27	85	4	91	8	13	0	77	0.98
1471744--1471789	3	15.3	3	91	8	76	67	0	0	32	0.91
1471744--1471795	9	6.2	8	86	6	52	67	0	0	32	0.91
1482642--1482924	143	2.0	143	97	0	530	20	25	20	33	1.97
1484327--1484399	22	3.3	22	83	11	87	32	24	15	27	1.95
1487199--1487254	25	2.2	25	81	15	71	33	16	1	48	1.56
1487539--1487608	37	1.9	37	85	2	97	31	14	11	42	1.81
1487694--1488191	131	3.8	131	82	6	549	27	31	17	23	1.97
1487715--1488207	266	1.9	262	83	5	643	27	31	16	24	1.96
1493823--1493852	4	7.8	4	92	7	53	20	0	0	80	0.72
1493874--1493918	20	2.1	22	88	8	67	26	4	2	66	1.22
1494030--1494055	6	4.3	6	100	0	52	46	0	0	53	1.00
1494296--1494726	84	5.1	84	83	3	499	22	18	27	30	1.98
1494296--1494714	170	2.5	167	84	4	518	23	19	26	30	1.98
1494853--1496086	106	11.6	106	92	1	1963	23	17	25	33	1.96
1500395--1500463	34	2.0	34	100	0	138	37	5	17	39	1.74
1506151--1506317	83	2.0	82	97	1	316	47	14	8	28	1.74
1511540--1511919	40	9.4	40	82	5	370	27	19	17	35	1.94
1511549--1511919	82	4.5	82	81	6	414	27	19	18	35	1.94
1511549--1511902	163	2.2	164	81	6	416	26	19	18	36	1.94
1523801--1523854	26	2.0	28	89	7	85	38	11	1	48	1.50
1524486--1524516	2	15.5	2	100	0	62	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)
1525903--1525943	20	2.0	20	86	9	57	51	4	0	43	1.23
1530175--1530291	31	3.8	31	85	2	137	37	9	13	39	1.77
1532231--1532317	43	2.0	43	93	0	147	37	8	19	34	1.81
1533290--1533340	13	3.7	14	77	17	54	41	0	1	56	1.10
1534161--1534232	36	2.0	36	84	10	94	41	0	0	58	0.98
1534179--1534232	18	2.9	18	71	13	56	38	0	0	61	0.96
1534629--1534683	21	2.6	21	80	8	67	60	0	0	40	0.97
1535333--1535399	30	2.2	30	94	2	116	37	4	17	40	1.70
1536456--1536531	36	2.1	36	85	7	100	48	1	1	48	1.18
1536664--1536708	20	2.5	18	80	19	58	22	17	11	48	1.78
1536677--1536714	20	1.9	20	88	0	58	21	23	10	44	1.83
1536922--1536959	20	1.9	20	84	10	51	42	0	0	57	0.98
1537666--1538363	217	3.3	216	90	2	1083	50	8	11	28	1.68
1538446--1538559	2	57.5	2	70	14	76	46	0	4	48	1.28
1538446--1538547	42	2.4	42	84	7	136	45	0	4	49	1.30
1538627--1538664	11	3.5	11	88	0	58	50	2	2	44	1.30
1538708--1538775	22	2.8	24	82	13	86	44	0	5	50	1.26
1538837--1538873	7	5.6	7	84	12	51	18	0	32	48	1.49
1538837--1538873	19	1.9	19	94	0	65	18	0	32	48	1.49
1538896--1538964	20	3.2	20	75	18	66	39	8	2	49	1.49
1538907--1538956	13	3.8	13	76	7	57	38	6	4	52	1.45
1538898--1538994	45	2.1	45	84	5	124	42	9	3	45	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538966--1538996	13	2.4	13	94	0	53	51	6	3	38	1.44
1538970--1539200	33	6.8	33	72	22	142	43	9	6	39	1.65
1539033--1539113	18	4.4	18	79	11	92	40	8	7	43	1.63
1538983--1539105	38	3.3	38	80	13	141	44	8	6	39	1.62
1539080--1539154	24	3.1	24	79	11	98	41	12	8	38	1.72
1539184--1539242	19	3.0	21	81	18	74	44	5	1	49	1.34
1539343--1539480	18	7.9	18	69	16	85	44	6	5	43	1.54
1539340--1539462	33	3.6	34	82	11	144	43	6	5	43	1.53
1539491--1539543	21	2.5	21	87	0	79	39	7	5	47	1.56
1539592--1539643	21	2.5	20	80	17	54	48	3	1	46	1.31
1539561--1539676	28	3.7	33	76	17	97	48	2	0	48	1.21
1539561--1539673	15	7.3	15	73	16	97	47	2	0	48	1.21
1543253--1543291	16	2.4	16	91	0	60	33	17	28	20	1.96
1544921--1545069	73	2.0	73	100	0	298	41	9	8	40	1.67
1555747--1555788	16	2.6	16	100	0	84	21	4	28	45	1.72
1559928--1559979	21	2.5	21	100	0	104	25	3	32	38	1.74
1560471--1560521	14	3.7	14	77	10	52	19	7	0	72	1.08
1562191--1562251	28	2.1	29	85	8	81	24	0	11	63	1.27
1562929--1562978	4	12.8	4	77	12	50	20	4	0	76	0.95
1562926--1562978	13	4.1	13	80	7	63	18	5	0	75	0.99
1565973--1566075	36	2.7	38	80	11	113	36	22	17	23	1.94
1565973--1566091	20	6.1	20	79	11	131	36	21	16	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1566007--1566091	41	2.1	40	86	6	118	37	23	15	23	1.93
1570650--1570827	20	9.1	20	83	7	213	36	22	19	21	1.95
1574130--1574309	96	1.9	96	83	4	238	41	18	12	27	1.87
1576233--1576265	17	1.9	17	93	0	57	33	6	15	45	1.70
1579172--1579358	96	1.9	96	86	2	268	40	16	11	31	1.84
1582992--1583022	15	2.0	16	93	6	55	41	6	12	38	1.69
1584076--1584101	2	13.0	2	100	0	52	50	0	0	50	1.00
1584289--1584330	18	2.3	18	91	0	66	35	0	19	45	1.50
1584289--1584346	18	3.4	17	81	9	64	36	0	17	46	1.48
1589979--1590015	14	2.5	15	83	16	51	2	16	0	81	0.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18