genome.fa.s28.2.7.7.80.10.50.1000.8.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: Scaffold28
Parameters: 2 7 7 80 10 50 1000
Length:  2815568

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

This is table  8  of  16  ( 1890 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)
1234134--1234537	130	3.1	129	82	4	481	34	11	24	30	1.91
1233923--1234388	209	2.2	211	82	3	541	35	12	22	29	1.90
1234212--1234327	51	2.3	51	86	3	144	35	9	23	31	1.87
1234342--1234460	52	2.3	52	89	1	186	31	13	27	27	1.94
1234264--1234812	210	2.6	209	83	3	692	33	12	24	29	1.92
1234395--1234616	79	2.8	78	84	4	284	32	12	25	28	1.93
1234480--1234733	131	1.9	131	82	7	320	33	11	24	29	1.91
1234619--1234838	79	2.8	78	82	5	264	34	13	23	29	1.92
1235450--1235481	15	2.1	15	100	0	64	37	18	37	6	1.76
1236922--1237037	50	2.3	50	83	2	144	41	12	19	25	1.88
1244656--1244720	33	2.0	33	90	0	103	32	20	15	32	1.93
1244750--1244809	19	3.0	20	82	7	86	33	18	16	31	1.93
1245326--1245398	30	2.4	32	84	6	89	24	21	9	43	1.82
1245603--1245725	45	2.7	45	85	0	156	54	14	23	7	1.65
1247690--1247742	20	2.6	21	85	8	74	28	13	16	41	1.86
1247690--1247748	20	3.0	19	85	7	73	25	11	20	42	1.86
1249820--1249862	20	2.1	20	86	4	59	9	30	44	16	1.79
1250301--1250336	13	2.8	13	95	0	63	33	13	19	33	1.91
1256031--1256056	13	2.0	13	100	0	52	30	15	15	38	1.88
1256011--1256075	33	2.0	33	87	6	96	27	13	16	41	1.87
1269459--1269904	84	5.3	84	78	4	389	19	29	17	33	1.95
1269457--1269988	42	12.7	43	69	14	229	19	29	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269719--1269948	127	1.8	127	87	0	343	20	27	16	35	1.94
1269789--1270032	84	2.9	85	82	3	226	18	28	18	34	1.94
1269629--1270081	211	2.1	211	86	0	602	18	28	17	35	1.94
1269846--1270032	84	2.2	84	86	0	257	19	29	17	33	1.95
1269676--1270039	42	8.6	41	72	10	169	19	28	17	34	1.94
1270279--1270719	42	10.5	42	73	10	209	18	28	16	36	1.93
1270113--1270677	84	6.7	84	73	7	263	19	27	16	36	1.93
1270151--1270592	126	3.5	124	75	7	365	19	28	16	35	1.94
1270310--1270468	85	1.9	85	86	2	230	18	29	14	37	1.91
1270563--1270719	85	1.8	85	83	2	208	17	25	18	38	1.92
1270149--1270762	42	14.6	42	69	10	170	19	27	17	36	1.93
1270523--1270765	127	1.9	127	84	5	321	17	25	18	37	1.93
1270277--1270757	253	1.9	252	80	6	553	18	27	16	37	1.93
1271228--1271257	11	2.6	12	94	5	53	70	0	0	30	0.88
1271252--1271290	20	2.0	20	89	0	60	74	10	0	15	1.07
1271705--1271915	45	4.7	45	93	1	352	53	13	26	6	1.65
1271740--1271776	17	2.1	17	90	5	56	54	13	27	5	1.61
1271785--1271821	17	2.1	17	90	5	56	54	13	27	5	1.61
1271875--1271911	17	2.1	17	90	5	56	54	13	27	5	1.61
1272144--1272269	40	3.2	40	80	0	126	28	32	18	20	1.96
1272405--1272454	26	2.0	24	84	7	64	54	16	18	12	1.72
1274337--1274535	100	2.0	99	97	1	371	38	10	16	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278004--1278046	20	2.1	20	82	4	50	11	25	41	20	1.86
1278485--1278520	13	2.8	13	95	0	63	33	16	16	33	1.92
1282435--1282479	21	2.1	21	84	8	56	22	20	4	53	1.63
1282613--1282645	16	2.1	16	88	5	50	30	12	3	54	1.52
1284679--1284730	19	2.7	20	84	6	70	28	13	17	40	1.87
1284679--1284736	19	3.0	18	80	12	62	25	12	20	41	1.87
1285411--1285547	51	2.7	51	86	3	177	40	15	14	29	1.87
1285583--1285654	20	3.6	20	83	3	74	33	18	9	38	1.83
1288531--1288583	20	2.6	21	88	11	83	35	11	20	32	1.88
1296811--1296849	13	3.0	13	100	0	78	38	15	15	30	1.88
1300884--1300914	15	2.1	15	93	0	53	48	16	22	12	1.80
1304658--1304700	23	2.0	21	81	9	50	13	9	16	60	1.58
1305597--1305622	13	2.0	13	100	0	52	38	15	15	30	1.88
1305579--1305643	32	2.0	32	87	6	94	43	15	13	27	1.85
1309055--1309110	24	2.3	24	93	0	94	16	30	23	30	1.96
1309397--1309519	63	2.0	63	96	0	228	39	20	21	18	1.92
1316409--1316465	19	2.9	19	86	2	78	31	14	17	36	1.89
1326076--1326133	8	6.8	8	75	14	53	82	6	1	8	0.90
1326075--1326122	9	5.3	9	75	9	53	83	4	2	10	0.87
1326074--1326118	21	2.2	20	84	7	56	84	4	2	8	0.84
1327370--1327777	28	14.5	28	84	6	466	30	28	16	24	1.96
1328869--1328954	37	2.3	38	78	11	97	16	13	11	58	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334016--1334061	18	2.6	18	89	0	74	76	0	23	0	0.79
1334017--1334079	21	3.0	21	86	4	74	73	0	25	1	0.93
1334786--1335248	109	4.3	109	85	2	578	31	17	19	30	1.95
1334661--1335195	217	2.5	209	84	4	671	31	16	18	34	1.93
1337216--1337471	81	3.2	80	83	6	306	33	10	26	29	1.90
1337266--1337556	80	3.6	77	78	10	257	35	10	23	30	1.89
1337507--1337606	51	1.9	52	85	2	139	41	7	23	29	1.80
1339913--1339939	13	2.1	13	100	0	54	29	14	14	40	1.86
1339894--1339958	32	2.0	32	87	3	94	26	20	15	38	1.92
1340030--1340055	13	2.0	13	100	0	52	30	15	15	38	1.88
1340009--1340075	33	2.0	33	85	0	89	34	13	16	35	1.88
1341926--1342122	81	2.5	80	81	2	207	30	17	27	23	1.97
1342075--1342150	28	2.7	28	85	0	89	22	18	35	23	1.96
1342133--1342308	52	3.4	51	80	9	203	32	11	25	30	1.91
1342220--1342355	51	2.6	52	80	10	161	34	11	23	30	1.91
1342339--1342410	27	2.6	27	85	12	94	20	19	34	25	1.96
1342134--1342519	52	7.4	53	68	14	194	32	11	24	30	1.91
1342399--1342519	51	2.3	52	88	5	174	33	11	21	33	1.89
1344946--1345013	19	3.9	18	76	23	83	38	14	11	35	1.83
1344968--1344992	13	1.9	13	100	0	50	32	16	16	36	1.90
1344949--1345011	32	2.0	32	96	0	117	36	15	12	34	1.86
1376656--1376725	28	2.5	28	97	0	131	31	2	20	45	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1378326--1378484	81	2.0	81	98	0	309	33	10	16	39	1.82
1379509--1379542	2	17.0	2	100	0	68	50	0	0	50	1.00
1379574--1379616	2	21.5	2	90	0	68	51	4	0	44	1.22
1380985--1381009	13	1.9	13	100	0	50	52	0	0	48	1.00
1390585--1390612	2	14.0	2	100	0	56	50	0	0	50	1.00
1391170--1391205	16	2.2	16	90	0	54	36	2	5	55	1.38
1393695--1393720	2	13.0	2	100	0	52	50	0	0	50	1.00
1394320--1394388	2	36.0	2	75	18	58	52	0	4	43	1.21
1398102--1398139	17	2.2	18	90	4	60	50	10	10	28	1.70
1399479--1399550	36	2.0	36	97	0	135	36	18	6	38	1.77
1401587--1401639	20	2.6	21	77	14	65	45	9	16	28	1.79
1401741--1401782	20	2.1	20	86	0	57	30	11	7	50	1.66
1404117--1404262	78	1.9	78	82	2	186	30	22	10	36	1.87
1404274--1404346	28	2.6	28	97	0	137	24	27	16	31	1.96
1404210--1404414	107	1.9	106	83	2	266	27	20	13	38	1.90
1404366--1404431	27	2.4	29	71	16	68	24	15	13	46	1.81
1405604--1405701	36	2.9	34	79	11	105	31	24	12	31	1.92
1406140--1406246	52	2.1	52	92	0	178	38	11	17	32	1.85
1406224--1406254	10	3.1	10	90	0	53	41	6	29	22	1.78
1409966--1410457	173	2.8	174	82	2	625	42	9	6	41	1.64
1409908--1410457	173	3.2	170	81	5	614	42	10	6	40	1.65
1412423--1412478	28	2.0	28	96	0	103	39	23	3	33	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427212--1427329	52	2.3	52	90	0	191	38	17	16	27	1.91
1434203--1434237	17	2.0	18	88	5	54	82	8	2	5	0.91
1434493--1434553	10	6.2	10	78	5	63	85	6	8	0	0.75
1434476--1434553	12	6.5	11	76	17	66	84	7	7	0	0.77
1434477--1434554	38	2.0	39	87	9	115	83	8	7	0	0.82
1434476--1434546	1	71.0	1	72	0	52	85	7	7	0	0.73
1435478--1435616	31	4.5	30	85	9	172	23	30	15	29	1.96
1435486--1435633	62	2.4	63	86	4	210	23	32	17	26	1.97
1435613--1436294	33	20.8	34	79	12	632	20	34	12	32	1.90
1435710--1435770	28	2.2	27	88	2	86	22	34	13	29	1.92

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