genome.fa.s7782.2.7.7.80.10.50.1000.8.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: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3900615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  8  of  19  ( 2174 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)
1339719--1339833	24	4.8	24	87	4	151	40	20	13	26	1.88
1339699--1339850	72	2.1	71	79	8	173	44	19	11	25	1.84
1342283--1342341	18	3.3	18	90	0	91	11	22	47	18	1.81
1342296--1342320	13	1.9	13	100	0	50	12	24	48	16	1.79
1349063--1349088	2	13.0	2	100	0	52	50	0	0	50	1.00
1349180--1349214	4	8.8	4	100	0	70	48	25	0	25	1.51
1349234--1349270	12	3.1	12	92	7	58	29	0	0	70	0.88
1349339--1349456	2	61.0	2	85	6	154	46	2	0	50	1.14
1350178--1350217	21	1.9	21	94	0	71	20	27	30	22	1.98
1350502--1350566	21	3.1	21	79	0	76	23	26	27	23	2.00
1350649--1350705	24	2.4	24	81	0	69	63	3	0	33	1.12
1350667--1350712	24	1.9	24	81	0	56	69	4	2	23	1.17
1351187--1351239	2	28.0	2	79	11	58	43	0	3	52	1.19
1351200--1351256	14	4.2	13	82	8	53	43	0	0	56	0.99
1351384--1351459	32	2.4	32	73	6	75	32	1	2	63	1.17
1353823--1353924	29	3.6	29	79	14	81	54	0	4	39	1.28
1353842--1353924	29	2.8	29	85	3	103	55	0	4	39	1.21
1355803--1355877	31	2.4	31	86	4	98	37	13	16	33	1.87
1357151--1357207	29	2.0	29	89	0	87	29	7	10	52	1.62
1357420--1357462	15	2.9	15	89	3	70	69	0	0	30	0.88
1359876--1360224	175	2.0	174	99	0	689	44	21	13	20	1.85
1368630--1368669	21	2.0	21	85	5	55	47	7	15	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1368672--1368743	23	3.2	22	88	4	99	38	22	4	34	1.73
1369104--1369166	23	2.7	23	90	0	90	38	20	3	38	1.69
1368332--1369363	423	2.5	424	94	3	1842	38	11	7	42	1.70
1369574--1369659	39	2.2	39	93	0	145	18	13	18	48	1.80
1369918--1369954	18	2.1	18	94	0	65	51	8	8	32	1.61
1370388--1370450	23	2.7	23	92	0	99	38	20	4	36	1.74
1370858--1370943	39	2.2	39	91	0	136	19	13	17	48	1.80
1371202--1371238	18	2.1	18	89	0	56	51	10	5	32	1.60
1371654--1371725	23	3.2	23	84	4	92	40	20	4	34	1.72
1371743--1371789	20	2.3	21	74	3	51	36	10	10	42	1.74
1372066--1372128	24	2.6	24	76	2	72	41	14	9	34	1.78
1374573--1375046	176	2.7	179	88	6	720	33	17	15	33	1.91
1374573--1375079	175	2.9	179	86	6	698	33	17	14	34	1.90
1376214--1376255	21	2.0	21	85	0	57	19	28	11	40	1.87
1378462--1378507	20	2.4	18	77	22	58	21	17	10	50	1.77
1378715--1379433	228	3.1	229	96	1	1318	39	8	7	44	1.63
1383614--1384255	342	1.9	342	81	4	794	28	16	26	28	1.97
1385607--1385679	30	2.4	30	93	0	119	38	23	12	26	1.90
1390611--1390652	16	2.7	15	85	7	57	61	7	2	28	1.35
1390664--1390690	2	13.5	2	100	0	54	48	0	0	51	1.00
1392104--1392152	3	16.7	3	87	4	64	65	0	0	34	0.93
1394581--1394643	31	2.1	30	82	8	74	38	4	12	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399033--1399076	23	1.9	23	95	0	79	34	22	20	22	1.97
1399033--1399101	23	3.0	23	82	0	66	31	24	21	21	1.98
1399117--1399434	103	3.1	103	95	1	561	37	24	12	25	1.91
1401652--1402065	206	2.0	206	96	3	764	34	22	7	35	1.83
1405079--1405203	23	5.3	23	75	6	108	32	21	20	25	1.98
1405079--1405203	47	2.7	47	89	1	180	32	21	20	25	1.98
1405213--1405517	103	3.0	102	92	5	500	36	23	13	26	1.92
1409013--1409052	3	13.3	3	89	10	64	65	0	0	35	0.93
1409248--1409596	127	2.7	130	81	7	392	23	17	33	25	1.96
1409596--1409975	66	5.8	66	82	5	331	40	12	21	26	1.89
1409745--1409852	36	3.2	36	65	20	95	42	12	19	25	1.87
1409596--1409975	132	2.9	130	81	4	402	40	12	21	26	1.89
1410127--1410252	36	3.5	36	85	4	157	42	11	16	28	1.84
1411323--1411359	2	18.5	2	100	0	74	48	0	0	51	1.00
1414173--1414210	18	2.1	18	95	0	67	50	10	15	23	1.75
1417619--1417679	3	20.3	3	93	6	106	65	0	0	34	0.93
1423146--1423281	60	2.3	60	89	0	209	30	22	22	24	1.99
1423146--1423283	20	6.9	20	82	6	145	30	21	22	25	1.99
1423913--1423964	20	2.6	20	90	0	77	17	19	26	36	1.94
1423917--1423985	20	3.5	20	87	0	75	17	14	24	43	1.86
1423951--1423994	20	2.2	20	83	0	52	15	11	20	52	1.74
1425894--1425961	20	3.4	20	87	4	93	35	26	20	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1426004--1426079	20	3.8	20	89	0	116	21	19	22	36	1.95
1426580--1426678	21	4.7	21	77	3	92	22	31	20	26	1.98
1426577--1426682	42	2.5	41	78	4	113	20	33	19	26	1.97
1427989--1428054	30	2.2	30	100	0	132	28	3	13	54	1.54
1428204--1428541	20	17.9	20	76	12	277	23	18	21	36	1.95
1428160--1428345	73	2.5	73	86	3	248	24	19	20	36	1.95
1428170--1428305	34	3.9	34	73	16	114	23	20	19	36	1.95
1428359--1428513	54	2.9	53	86	3	211	21	18	21	38	1.93
1428716--1428750	18	1.9	18	94	0	61	17	2	25	54	1.57
1430787--1430813	14	1.9	14	100	0	54	7	18	29	44	1.77
1431013--1431066	24	2.2	24	93	0	90	40	20	18	20	1.91
1431885--1431998	20	5.7	20	78	8	115	24	21	21	31	1.98
1432533--1432594	30	2.1	30	84	6	81	40	11	19	29	1.86
1436819--1436978	6	27.3	6	81	7	141	43	13	6	35	1.71
1436819--1436978	12	13.7	12	83	7	168	43	13	6	35	1.71
1445396--1445483	33	2.8	30	82	6	104	26	13	23	36	1.92
1447169--1447342	35	5.0	35	86	1	190	33	19	13	33	1.90
1447183--1447346	70	2.3	70	86	2	222	34	18	14	32	1.91
1449936--1449972	13	2.8	13	95	0	65	56	24	13	5	1.58
1451625--1451685	18	3.5	17	77	6	68	34	9	16	39	1.82
1451625--1451694	18	4.0	17	74	9	61	35	8	17	38	1.80
1451625--1451694	35	2.0	35	83	5	88	35	8	17	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1453887--1453931	21	2.1	21	91	0	72	13	26	24	35	1.92
1462450--1462519	29	2.5	29	95	4	126	34	17	30	18	1.94
1463699--1463738	22	1.9	22	85	10	57	27	5	22	45	1.73
1466033--1466226	56	3.5	56	76	5	212	28	15	14	40	1.88
1467786--1467836	26	2.0	26	84	7	68	35	7	7	49	1.61
1469226--1469308	41	2.0	41	92	0	139	25	10	24	39	1.87
1469766--1469830	6	11.0	6	88	1	60	46	9	1	43	1.45
1469766--1469814	12	4.1	12	94	0	71	48	10	0	40	1.37
1469766--1469814	18	2.7	18	90	0	71	48	10	0	40	1.37
1469875--1470097	36	5.8	37	77	15	197	43	4	8	44	1.53
1469856--1470095	79	3.1	74	77	16	236	42	3	8	45	1.52
1469875--1470088	40	5.6	40	77	10	180	43	4	8	43	1.54
1470068--1470139	33	2.3	31	90	9	119	38	2	6	51	1.43
1470224--1470291	3	22.7	3	79	11	77	27	4	0	67	1.09
1470219--1470287	31	2.2	31	84	5	95	27	4	0	68	1.09
1472757--1472803	17	2.7	18	93	6	80	10	6	0	82	0.82
1472820--1472896	31	2.5	31	76	13	79	20	2	2	74	1.07
1472844--1472893	24	2.3	23	80	16	61	24	2	2	72	1.06
1472824--1472900	28	2.7	27	71	16	66	20	2	2	74	1.07
1474354--1474382	5	5.8	5	100	0	58	82	0	0	17	0.66
1474749--1474774	8	3.2	8	100	0	52	50	0	50	0	1.00
1475395--1475437	20	2.2	20	86	0	59	32	13	18	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1477365--1477450	3	27.7	3	80	6	91	63	1	2	32	1.14
1481644--1481680	16	2.3	16	95	0	65	67	0	2	29	1.04
1482650--1482692	2	21.5	2	100	0	86	48	0	0	51	1.00
1484383--1484427	14	3.1	15	70	23	51	35	22	17	24	1.95
1487175--1487218	2	22.5	2	95	4	81	52	0	0	47	1.00
1487585--1487650	31	2.1	31	91	0	105	36	13	30	19	1.91
1496493--1496521	2	14.5	2	100	0	58	48	0	0	51	1.00
1497991--1498017	2	13.5	2	100	0	54	51	0	0	48	1.00
1502228--1502278	24	2.1	24	85	0	66	27	19	5	47	1.73
1508343--1508430	45	2.0	45	100	0	176	27	11	21	39	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19