genome.fa.s8719.2.7.7.80.10.50.1000.5.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  5  of  18  ( 2140 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)
1229669--1229710	15	2.6	16	82	17	52	33	4	0	61	1.17
1230224--1230286	17	3.5	19	82	10	78	58	1	7	31	1.36
1230296--1230348	15	3.7	15	77	10	56	56	5	1	35	1.34
1231441--1231483	17	2.4	18	84	7	52	48	0	2	48	1.14
1234213--1234369	80	2.0	80	86	5	219	35	13	21	29	1.92
1235352--1235392	2	20.5	2	100	0	82	51	0	0	48	1.00
1238827--1238872	20	2.3	20	92	3	76	32	8	8	50	1.64
1244984--1245101	47	2.5	46	86	2	155	27	14	24	33	1.94
1245411--1246161	54	13.9	54	86	0	957	34	17	15	32	1.92
1246243--1246302	30	2.0	30	93	6	104	33	6	16	43	1.74
1246385--1246446	29	2.1	29	87	0	88	22	35	16	25	1.94
1246510--1246624	20	5.7	20	83	6	142	20	27	20	30	1.98
1246991--1247060	34	2.1	34	86	5	99	35	14	25	24	1.93
1248574--1248635	21	3.1	19	70	19	54	56	4	4	33	1.42
1249846--1249914	30	2.2	30	82	15	86	36	4	17	42	1.69
1249856--1249914	30	2.0	30	93	6	102	33	5	16	44	1.70
1249995--1250052	21	2.7	22	86	7	75	24	36	17	22	1.95
1250208--1250247	20	1.9	22	90	10	66	37	40	10	12	1.77
1253189--1253249	23	2.7	23	92	0	95	36	21	27	14	1.93
1263254--1263315	23	2.8	22	85	4	88	24	30	25	19	1.98
1263297--1263339	19	2.3	19	84	8	52	20	32	32	13	1.92
1269082--1269814	54	13.6	54	87	0	982	35	15	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269082--1270307	108	11.6	108	83	5	1423	36	15	15	32	1.89
1269082--1270307	162	7.7	162	83	6	1461	36	15	15	32	1.89
1269778--1269856	41	1.9	41	97	0	149	37	15	11	35	1.83
1269819--1270072	54	4.7	54	85	3	359	37	15	15	31	1.89
1270087--1270307	54	4.1	55	86	4	290	36	16	15	31	1.90
1269884--1270274	203	1.9	203	86	3	554	37	15	13	33	1.87
1271554--1271605	17	3.1	17	83	5	70	40	15	5	38	1.71
1272005--1272058	25	2.2	24	87	6	81	37	20	16	25	1.93
1272011--1272059	25	2.0	25	95	0	89	36	20	16	26	1.93
1284802--1284857	19	2.9	20	74	17	64	23	0	1	75	0.90
1284808--1284854	17	2.8	16	79	20	51	25	0	2	72	0.96
1288833--1288869	2	19.0	2	88	5	58	54	0	0	45	1.00
1288832--1288866	17	2.1	17	94	0	61	57	0	0	42	0.99
1288857--1288929	36	2.1	35	84	7	94	53	9	5	31	1.56
1289342--1289384	18	2.5	17	81	7	52	65	2	6	25	1.30
1289765--1289866	34	2.9	36	89	7	172	27	14	13	44	1.83
1294139--1294169	14	2.3	13	89	10	53	61	0	0	38	0.96
1294140--1294171	15	2.2	15	94	5	57	59	0	0	40	0.97
1295052--1295135	34	2.4	37	77	16	88	20	7	0	72	1.07
1295076--1295181	8	12.9	8	73	24	71	23	4	0	71	1.04
1295128--1295199	37	1.9	37	86	10	103	29	4	1	65	1.20
1295194--1295248	22	2.5	21	77	11	56	29	9	1	60	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295770--1296248	239	2.0	240	99	0	942	30	18	16	34	1.93
1298095--1298228	60	2.2	60	81	7	148	33	17	15	32	1.92
1324173--1324320	65	2.3	64	84	5	183	34	15	21	28	1.94
1326886--1326989	44	2.4	44	86	3	138	26	20	20	32	1.97
1332400--1332534	65	2.1	63	86	5	182	33	17	21	27	1.96
1333756--1333956	85	2.3	84	82	4	240	31	20	13	33	1.92
1339358--1339581	123	1.8	120	90	2	358	40	24	13	20	1.89
1339664--1339689	9	2.9	9	100	0	52	80	0	19	0	0.71
1340657--1340688	2	16.5	2	93	6	57	50	0	0	50	1.00
1353471--1353550	2	40.0	2	100	0	160	50	0	0	50	1.00
1368817--1368870	20	2.7	20	97	0	99	22	20	33	24	1.97
1371493--1371596	21	4.7	22	75	12	88	28	18	25	27	1.98
1371473--1371596	44	2.8	44	78	10	121	28	18	26	26	1.98
1375389--1375428	21	1.9	21	85	10	55	35	10	2	52	1.48
1377343--1377417	19	3.7	19	75	18	62	22	17	33	26	1.96
1379197--1379384	85	2.2	84	81	4	218	31	17	17	34	1.92
1379231--1379420	85	2.2	86	81	2	231	26	17	17	38	1.92
1386510--1386550	12	3.4	12	89	0	64	21	14	9	53	1.70
1386516--1386565	24	2.1	24	85	7	66	20	14	12	54	1.71
1391153--1391190	20	1.9	20	94	0	67	28	7	2	60	1.38
1391961--1392018	28	2.1	28	96	0	107	29	15	3	51	1.60
1396659--1396696	18	2.1	18	95	0	67	23	39	5	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401558--1401613	26	2.2	25	81	18	62	64	5	3	26	1.32
1402018--1402080	21	2.9	22	79	13	67	28	22	20	28	1.98
1405906--1405946	22	1.9	21	85	5	55	39	7	0	53	1.29
1407937--1408077	63	2.2	63	81	10	155	29	17	24	29	1.97
1410562--1410606	18	2.4	18	82	10	56	71	2	8	17	1.23
1414976--1415014	21	1.9	21	89	5	62	30	15	17	35	1.91
1418171--1418266	48	2.0	48	96	4	178	56	14	8	20	1.64
1418171--1418266	46	2.1	45	94	5	165	56	14	8	20	1.64
1421388--1421453	21	3.0	21	82	4	69	24	34	22	18	1.96
1421605--1421652	19	2.5	20	80	10	55	41	25	6	27	1.79
1422014--1422408	197	2.0	197	97	2	749	28	27	8	36	1.85
1423582--1423621	15	2.6	16	88	7	57	22	0	27	50	1.50
1428881--1428952	6	11.5	6	76	15	58	79	0	13	6	0.93
1428881--1428938	12	5.0	11	85	8	71	79	0	12	8	0.94
1428886--1428952	18	3.9	17	80	7	73	79	0	13	7	0.94
1434589--1434631	20	2.2	20	100	0	86	67	4	0	27	1.10
1434993--1435024	14	2.2	15	94	5	57	84	3	0	12	0.74
1449083--1449138	27	2.0	28	82	3	69	21	5	21	51	1.67
1452212--1452306	32	3.0	32	83	4	122	29	24	25	21	1.99
1452216--1452311	31	3.1	31	80	5	113	29	23	26	20	1.99
1452639--1452813	90	2.0	89	89	1	269	37	10	6	45	1.65
1459083--1459119	16	2.3	16	100	0	74	24	32	8	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459489--1459666	90	2.0	90	94	0	311	37	10	6	45	1.65
1461713--1461771	27	2.1	28	90	3	93	25	8	20	45	1.79
1461724--1461783	27	2.2	27	85	5	77	28	8	13	50	1.70
1462300--1462362	32	2.2	27	75	24	67	33	25	11	30	1.90
1462613--1462684	30	2.4	30	80	0	81	31	19	23	25	1.98
1464954--1464987	3	11.7	3	87	6	52	61	0	2	35	1.11
1465863--1465915	27	1.9	27	84	3	70	24	13	16	45	1.83
1466752--1466838	37	2.4	36	78	14	97	31	25	22	20	1.98
1468731--1468858	66	1.9	66	85	0	175	38	20	20	21	1.94
1471728--1471787	27	2.2	27	82	8	68	23	16	18	41	1.90
1475952--1476019	27	2.4	27	82	4	73	23	8	20	47	1.78
1475961--1475994	18	1.9	17	88	5	50	20	8	20	50	1.75
1480024--1480088	27	2.4	27	84	2	85	21	10	23	44	1.83
1485512--1485782	45	6.0	45	98	0	515	31	23	6	38	1.80
1485800--1485836	7	5.3	7	86	0	56	54	24	2	18	1.57
1486348--1486396	24	2.0	24	92	0	80	40	14	14	30	1.85
1486899--1486958	31	2.0	31	86	3	86	35	25	8	31	1.85
1486899--1486966	30	2.2	31	84	2	84	35	22	7	35	1.82
1489879--1490024	9	16.8	8	74	16	105	2	16	1	79	0.92
1489925--1490024	17	5.9	16	77	14	96	3	12	2	83	0.85
1489875--1490000	43	2.9	43	79	12	123	2	17	1	78	0.94
1489878--1490024	52	2.9	48	78	15	145	2	16	1	79	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489923--1490024	1	102.0	1	66	0	51	2	11	1	83	0.84
1492651--1492831	45	4.0	45	94	1	301	33	21	7	38	1.81
1492713--1492786	25	3.2	25	62	31	63	29	22	8	39	1.83
1493366--1493411	24	1.9	24	95	0	83	43	15	10	30	1.81
1494981--1495053	30	2.4	29	84	2	83	34	15	6	43	1.73
1496769--1496896	66	1.9	66	88	0	193	38	21	21	19	1.94
1498848--1498925	37	2.1	36	81	6	86	35	17	25	20	1.95
1500877--1500924	13	3.7	13	78	10	53	16	20	50	12	1.78
1500867--1500922	26	2.1	27	86	3	78	16	21	48	14	1.81
1505553--1505797	22	11.1	22	95	0	445	37	0	12	48	1.44

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