genome.fa.s74.2.7.7.80.10.50.1000.6.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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   

This is table  6  of  24  ( 2862 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)
1162448--1162474	14	1.9	14	100	0	54	25	0	0	74	0.83
1166227--1166269	3	14.3	3	100	0	86	32	0	0	67	0.91
1167466--1167497	2	16.0	2	100	0	64	0	50	0	50	1.00
1174302--1174329	2	14.0	2	100	0	56	50	0	0	50	1.00
1175332--1175371	2	20.0	2	84	0	53	2	42	5	50	1.37
1176885--1176922	2	19.0	2	88	0	58	47	0	5	47	1.24
1176885--1176933	10	5.1	10	87	7	57	44	0	8	46	1.33
1178278--1178411	65	2.1	65	97	0	250	46	17	18	17	1.85
1183332--1183367	2	18.0	2	100	0	72	50	0	50	0	1.00
1183907--1183947	12	3.7	12	81	15	52	26	0	0	73	0.84
1183904--1183958	24	2.2	24	81	18	69	30	0	0	69	0.89
1185822--1185923	8	11.5	8	75	18	62	42	0	0	56	1.05
1185819--1185874	23	2.6	21	78	10	60	41	1	0	57	1.09
1185807--1185918	28	4.2	25	72	21	95	43	0	0	55	1.05
1185808--1185925	26	4.4	26	72	15	98	43	0	0	55	1.05
1186171--1186202	2	16.0	2	93	0	55	53	0	0	46	1.00
1186657--1186702	22	2.1	22	84	8	58	54	0	0	45	0.99
1192665--1192708	2	22.0	2	100	0	88	0	50	0	50	1.00
1193381--1193437	17	3.4	16	73	9	51	42	0	0	57	0.98
1193710--1193789	24	3.6	21	75	14	65	57	0	2	40	1.12
1193838--1193886	19	2.6	19	81	9	57	55	0	2	42	1.11
1194106--1194138	17	1.9	17	93	0	57	63	3	0	33	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205373--1205455	27	3.0	27	70	8	69	51	15	3	28	1.60
1207336--1207381	21	2.1	22	84	4	58	21	30	17	30	1.96
1208502--1208528	13	2.1	13	100	0	54	33	14	22	29	1.94
1209984--1210044	27	2.2	27	88	2	95	57	4	0	37	1.20
1210635--1210696	13	4.9	13	70	26	53	41	0	0	58	0.98
1210653--1210712	31	1.9	32	86	10	88	43	0	0	56	0.99
1210642--1210719	22	3.4	22	74	16	61	43	0	0	56	0.99
1210749--1210817	21	3.1	23	81	8	81	66	0	1	31	1.00
1210769--1210819	16	3.1	17	86	8	79	72	0	0	27	0.85
1210753--1210819	23	3.0	22	76	8	64	68	0	1	29	0.98
1213222--1213260	19	2.0	20	85	9	55	38	2	0	58	1.12
1226201--1226256	6	9.7	6	75	7	53	19	1	26	51	1.57
1231110--1231153	2	22.0	2	100	0	88	50	0	0	50	1.00
1231676--1231707	16	2.0	16	93	0	55	90	0	9	0	0.45
1233174--1233212	18	2.2	18	86	9	53	5	15	0	79	0.90
1235220--1235274	27	2.0	27	89	6	85	61	0	0	38	0.96
1238229--1238280	18	2.9	18	80	8	54	44	0	0	55	0.99
1242027--1242062	4	9.0	4	93	0	63	2	0	25	72	0.98
1242391--1242439	19	2.6	20	78	12	59	44	4	2	48	1.33
1242556--1242582	13	2.1	13	100	0	54	55	0	7	37	1.28
1243887--1243969	26	3.1	26	75	16	73	60	0	1	38	1.05
1243893--1243974	24	3.2	25	75	14	78	57	0	1	41	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244814--1244860	21	2.2	21	84	0	58	8	17	4	70	1.29
1251045--1251130	32	2.6	33	77	7	84	53	2	0	44	1.13
1251077--1251152	27	2.8	28	74	11	77	55	1	0	43	1.08
1251936--1251961	3	8.7	3	100	0	52	30	0	0	69	0.89
1255823--1255887	34	1.9	34	81	12	80	38	1	7	52	1.40
1256159--1256201	23	1.9	23	85	4	61	32	2	13	51	1.54
1256310--1256350	21	2.0	21	90	9	66	58	0	0	41	0.98
1257087--1257129	20	2.1	21	86	4	61	32	0	6	60	1.23
1257116--1257202	22	4.1	22	70	18	62	55	0	0	44	0.99
1257173--1257224	18	2.9	17	82	5	59	63	1	0	34	1.06
1257190--1257235	17	2.7	18	86	6	60	67	4	0	28	1.10
1281137--1281185	19	2.6	19	90	0	71	77	6	0	16	0.96
1285569--1285595	5	5.4	5	100	0	54	0	0	81	18	0.69
1285994--1286028	18	1.9	18	88	0	52	40	34	8	17	1.80
1286553--1286639	11	8.2	11	73	17	51	37	0	0	62	0.96
1286547--1286604	29	2.0	29	86	6	82	39	0	0	60	0.97
1286919--1287014	37	2.9	32	74	24	85	39	3	1	56	1.22
1287489--1287530	17	2.5	17	88	0	66	45	2	0	52	1.13
1287935--1288004	36	1.9	37	82	5	90	47	4	2	45	1.37
1298936--1298970	10	3.2	11	92	8	54	82	0	17	0	0.66
1299406--1299448	16	2.9	15	83	10	61	46	0	0	53	1.00
1300007--1300040	15	2.4	14	85	9	50	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300960--1301032	37	2.0	36	82	12	87	47	0	0	52	1.00
1310374--1310436	31	2.0	31	87	0	90	50	3	1	44	1.27
1312799--1312853	21	2.8	20	73	21	62	34	0	1	63	1.05
1314334--1314367	17	2.0	17	88	11	52	20	0	2	76	0.92
1315552--1315636	32	2.5	35	76	16	99	48	0	0	51	1.00
1315596--1315627	16	2.0	16	100	0	64	56	0	0	43	0.99
1315671--1315711	22	1.9	22	90	5	66	31	2	0	65	1.05
1316424--1316465	18	2.3	18	87	0	57	64	9	0	26	1.24
1316841--1316882	3	14.0	3	100	0	84	66	0	0	33	0.92
1317253--1317292	17	2.4	17	87	8	55	57	0	0	42	0.98
1317952--1317994	21	2.1	21	84	16	56	48	0	0	51	1.00
1318197--1318255	23	2.5	24	84	13	79	57	0	1	40	1.09
1318201--1318255	22	2.3	24	84	12	78	60	0	1	38	1.08
1325986--1326026	18	2.5	17	88	11	59	34	0	0	65	0.93
1328971--1329006	2	18.0	2	88	11	56	50	2	0	47	1.15
1329586--1329629	23	1.9	23	86	9	63	50	0	9	40	1.34
1337247--1337442	105	1.9	105	84	4	270	18	27	14	38	1.90
1339548--1339598	15	2.9	18	70	18	54	56	0	0	43	0.99
1339482--1339601	50	2.5	49	80	14	119	50	0	0	49	1.06
1341377--1341413	6	6.2	6	100	0	74	81	0	18	0	0.70
1341904--1341934	16	1.9	16	93	0	53	58	0	6	35	1.24
1342484--1342575	39	2.3	40	78	12	100	46	2	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1342553--1342620	35	2.0	32	83	13	84	55	0	0	44	0.99
1343513--1343648	27	5.0	27	68	12	71	61	0	1	36	1.11
1343535--1343622	26	3.3	25	80	13	95	57	1	0	40	1.06
1343520--1343648	28	4.7	27	77	15	122	58	0	1	38	1.13
1343606--1343650	23	1.9	24	86	4	65	62	0	2	35	1.08
1343516--1343648	55	2.5	53	76	13	139	60	0	1	37	1.12
1343584--1343650	21	3.0	23	78	8	66	61	0	1	37	1.05
1344237--1344271	11	3.1	11	91	4	52	48	2	0	48	1.16
1344453--1344510	20	2.9	21	82	17	70	58	3	0	37	1.15
1346909--1346960	21	2.2	25	83	12	67	40	5	0	53	1.25
1347474--1347509	11	3.2	11	88	7	54	41	0	0	58	0.98
1347885--1347942	19	3.0	20	77	10	66	58	0	1	39	1.08
1348196--1348239	18	2.5	18	88	3	63	34	0	4	61	1.16
1349476--1349512	6	6.0	6	90	6	56	54	0	0	45	1.00
1349476--1349567	12	7.5	12	68	13	53	52	0	0	47	1.00
1349760--1349797	19	2.0	19	85	10	51	42	0	0	57	0.98
1352760--1352798	3	13.0	3	100	0	78	33	0	0	66	0.92
1361363--1361392	12	2.5	12	94	0	51	0	20	46	33	1.51
1365057--1365082	3	8.7	3	100	0	52	65	0	34	0	0.93
1365600--1365633	6	5.8	6	86	6	52	0	14	0	85	0.60
1365600--1365633	17	2.0	17	94	0	59	0	14	0	85	0.60
1365604--1365643	21	1.9	21	89	0	62	0	15	2	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366176--1366209	17	1.9	18	94	5	61	70	0	0	29	0.87
1367759--1367793	7	4.9	7	89	3	52	60	0	0	40	0.97
1368561--1368622	20	3.0	21	75	11	58	41	0	0	58	0.98
1372529--1372580	26	2.0	26	85	14	72	50	0	1	48	1.12
1372570--1372630	18	3.4	18	73	15	63	44	0	0	55	0.99
1375564--1375697	61	2.2	61	79	0	142	29	8	29	32	1.88
1375807--1375901	39	2.4	38	84	5	118	33	17	12	35	1.88
1375807--1375915	38	2.8	38	84	4	128	36	15	11	35	1.85
1375804--1375934	40	3.3	38	81	5	136	33	16	12	38	1.85
1376137--1376398	78	3.4	77	81	5	289	27	14	19	38	1.90

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