genome.fa.s8964.2.7.7.80.10.50.1000.8.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: VEPZ01008964.1 Hibiscus syriacus cultivar Beakdansim tig00112305_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2156694

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1293 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)
1347706--1347744	21	1.9	19	90	10	60	20	10	0	69	1.17
1349101--1349142	18	2.4	18	92	4	68	35	19	23	21	1.96
1349395--1349489	43	2.2	44	81	5	113	30	13	20	35	1.91
1358363--1358517	80	1.9	80	94	0	274	34	13	20	30	1.91
1358528--1359944	46	30.9	46	86	2	1900	41	13	21	23	1.88
1364414--1364800	44	8.9	44	83	1	456	42	11	20	25	1.86
1364851--1365292	219	2.0	221	99	0	870	38	13	18	30	1.88
1371084--1371190	50	2.2	50	91	1	171	41	12	13	33	1.81
1380614--1380963	44	8.0	44	83	3	420	41	10	21	26	1.85
1385383--1385420	2	19.0	2	100	0	76	50	0	0	50	1.00
1385662--1385691	15	1.9	16	93	6	53	53	0	0	46	1.00
1388309--1388495	81	2.3	81	92	0	320	35	11	22	29	1.90
1389820--1390294	60	8.0	60	90	2	715	33	11	19	36	1.87
1389820--1390294	119	4.0	119	90	3	722	33	11	19	36	1.87
1389820--1390288	179	2.6	178	90	2	701	33	11	19	35	1.87
1395390--1395557	90	1.9	89	94	1	300	45	6	11	36	1.66
1398000--1398095	20	4.8	20	73	8	88	31	14	28	26	1.95
1398494--1398966	60	7.9	60	89	2	702	33	10	18	36	1.86
1399542--1399836	81	3.6	81	87	1	421	34	11	23	31	1.90
1401742--1401771	2	15.0	2	100	0	60	50	0	0	50	1.00
1404516--1405233	81	8.9	81	89	0	954	36	11	21	30	1.88
1406413--1406463	9	5.3	9	79	11	57	1	21	0	76	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406408--1406480	7	10.0	7	77	14	60	1	20	0	78	0.83
1407996--1408042	21	2.3	21	96	3	87	55	10	4	29	1.53
1418144--1418267	56	2.2	56	91	1	205	36	11	19	33	1.87
1425948--1426017	19	3.5	21	79	11	67	31	15	24	28	1.96
1426341--1426750	56	7.3	56	89	3	578	35	10	18	35	1.85
1427068--1427136	30	2.2	30	85	15	95	34	5	17	42	1.73
1427077--1427136	30	2.0	30	93	6	104	33	6	16	43	1.74
1427216--1427273	21	2.8	21	94	0	98	18	36	18	25	1.95
1427226--1427271	13	3.9	13	73	26	57	17	39	19	23	1.92
1427336--1427389	20	2.6	21	91	2	83	22	31	18	27	1.97
1428684--1428731	19	2.5	20	82	3	62	52	6	12	29	1.63
1429993--1430061	30	2.2	30	85	15	95	34	5	17	42	1.73
1430002--1430061	30	2.0	30	93	6	104	33	6	16	43	1.74
1430141--1430198	21	2.8	21	89	0	89	24	36	15	24	1.94
1430261--1430307	21	2.3	21	92	3	78	21	31	19	27	1.97
1430672--1430741	34	2.1	32	86	5	95	31	15	30	22	1.95
1435163--1435208	17	2.7	17	100	0	92	26	6	26	41	1.80
1437255--1437292	17	2.2	18	90	4	60	55	13	0	31	1.38
1437414--1437468	5	10.6	5	86	9	67	56	3	0	40	1.17
1439392--1439423	2	16.5	2	93	6	57	50	0	0	50	1.00
1442646--1442683	4	9.8	4	82	5	51	73	0	23	2	0.95
1442634--1442679	23	2.0	22	84	12	58	73	2	19	4	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442694--1442754	12	5.4	11	78	9	52	72	1	11	14	1.20
1442717--1442773	6	10.5	6	88	11	72	68	0	14	17	1.21
1444020--1444090	15	4.9	15	82	6	74	71	0	2	25	0.99
1444029--1444091	5	13.0	5	88	6	67	73	0	1	25	0.93
1444035--1444097	29	2.2	29	83	8	76	74	0	1	23	0.90
1444211--1444392	77	2.4	76	86	5	244	40	4	6	48	1.49
1444211--1444421	37	5.6	38	79	11	204	42	5	5	46	1.50
1444225--1444421	39	5.2	37	78	13	152	43	5	5	45	1.50
1444347--1444489	60	2.3	63	84	8	177	48	6	3	41	1.45
1444408--1444477	36	1.9	36	94	0	122	47	4	2	45	1.37
1445219--1445895	84	8.0	84	83	2	775	24	19	25	31	1.98
1445204--1445908	253	2.8	251	83	3	894	24	19	25	31	1.98
1445233--1445908	337	2.0	336	84	1	888	24	19	25	31	1.98
1447029--1447247	95	2.5	89	81	11	263	31	18	21	29	1.97
1447090--1447266	95	1.9	95	89	2	275	30	16	20	32	1.94
1450888--1450917	13	2.3	13	94	0	51	70	0	0	30	0.88
1451003--1451032	16	1.9	15	93	6	51	76	0	3	20	0.92
1451080--1451139	24	2.6	23	81	7	59	75	1	11	11	1.13
1451210--1451238	14	2.1	14	93	6	51	75	0	6	17	1.01
1452448--1452477	5	6.0	5	100	0	60	60	0	0	40	0.97
1452440--1452508	23	3.2	22	78	15	65	71	0	1	27	0.95
1452638--1452773	37	3.6	38	77	9	109	44	4	5	45	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452666--1452773	37	2.9	36	84	11	139	47	4	3	44	1.41
1452666--1452823	36	4.7	35	77	20	147	46	4	3	45	1.39
1452735--1452799	25	2.6	25	82	0	85	49	3	3	44	1.33
1452697--1452816	61	1.9	62	90	6	190	48	4	3	44	1.38
1452760--1452863	36	2.7	36	85	11	136	43	4	4	47	1.46
1453348--1453390	13	3.4	13	87	3	52	51	2	9	37	1.47
1453475--1453527	21	2.5	20	82	17	63	62	1	1	33	1.17
1453482--1453578	51	2.0	51	83	6	128	63	3	4	28	1.27
1457346--1458027	200	3.4	201	88	3	941	30	15	15	38	1.89
1465734--1465781	19	2.5	19	93	0	78	54	10	4	31	1.53
1466360--1466415	24	2.4	23	80	8	69	50	7	0	42	1.30
1468402--1468440	20	1.9	21	84	5	53	20	15	10	53	1.70
1468280--1468837	182	3.1	182	89	1	834	27	14	13	43	1.84
1472279--1472592	156	2.0	158	96	2	589	28	17	17	36	1.92
1477023--1477084	18	3.5	18	95	2	108	35	20	22	20	1.96
1477938--1477987	20	2.5	20	83	6	57	38	16	16	30	1.90
1478023--1478227	95	2.2	95	88	2	297	35	16	18	29	1.93
1481948--1482022	32	2.4	31	77	8	80	46	0	0	53	1.00
1482835--1482889	19	2.8	19	78	21	69	38	5	1	54	1.34
1483445--1483492	13	3.7	13	85	0	60	33	20	12	33	1.90
1488828--1488871	16	2.8	16	96	0	79	36	13	9	40	1.76
1492366--1492390	13	1.9	13	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1493163--1493295	60	2.2	60	82	6	164	36	13	13	36	1.84
1493955--1494118	60	2.7	61	78	10	160	32	23	5	38	1.78
1494015--1494129	60	1.9	60	87	7	171	33	26	3	36	1.74
1494250--1494434	60	3.1	60	77	3	176	40	7	22	30	1.81
1495380--1495439	30	2.0	30	83	0	75	36	20	18	25	1.94
1495410--1495507	40	2.4	40	84	5	124	32	20	18	28	1.96
1495559--1495661	44	2.4	43	85	1	125	25	14	30	30	1.95
1496419--1496462	23	2.0	22	83	16	56	54	4	13	27	1.58
1504464--1504505	22	1.9	22	95	0	75	33	11	9	45	1.73
1505042--1505184	41	3.4	41	69	13	112	32	22	15	29	1.95
1505715--1505792	23	3.3	23	75	3	84	50	15	8	25	1.73
1508725--1508791	34	2.0	34	82	5	82	49	14	0	35	1.44
1508747--1508792	20	2.2	21	80	3	58	45	19	0	34	1.51
1509975--1510014	20	2.0	21	85	14	57	5	20	22	52	1.65
1511286--1511344	23	2.6	23	77	0	64	42	20	15	22	1.89
1514586--1514716	64	2.0	64	100	0	262	27	12	19	40	1.87
1518900--1519068	58	2.8	59	79	5	171	31	20	4	43	1.71
1518934--1519068	60	2.3	57	77	7	126	31	24	3	40	1.73
1519011--1519180	85	2.0	85	100	0	340	31	24	3	40	1.72
1519298--1519441	60	2.4	60	81	9	152	50	3	12	33	1.57
1524526--1524595	34	2.1	33	86	5	97	24	28	15	31	1.96
1524810--1524849	21	1.9	22	90	10	66	12	10	40	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1525056--1525132	20	3.8	19	83	13	100	20	20	35	23	1.96
1525212--1525270	30	2.0	29	86	3	82	42	13	6	37	1.71
1526838--1526946	53	2.0	54	96	1	202	31	21	22	25	1.98
1527763--1527802	21	1.9	22	90	10	66	12	10	40	37	1.77
1528003--1528045	22	1.9	23	90	4	70	20	20	32	25	1.97
1527989--1528087	21	4.7	21	82	13	123	21	20	36	22	1.95
1528167--1528225	31	1.9	31	93	3	102	42	16	5	35	1.71
1530319--1530398	39	2.1	39	97	0	151	35	17	0	47	1.48
1538114--1538168	19	2.8	19	72	2	56	36	14	16	32	1.89
1543110--1543521	80	5.1	81	82	5	451	28	20	11	39	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11