genome.fa.s320.2.7.7.80.10.50.1000.9.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: Scaffold320
Parameters: 2 7 7 80 10 50 1000
Length:  2598547

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

This is table  9  of  17  ( 1971 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)
1247754--1247805	25	2.1	25	92	0	86	38	17	9	34	1.82
1250050--1250103	27	2.0	27	92	0	90	38	16	20	24	1.92
1251752--1251808	16	3.7	16	82	13	75	66	0	0	33	0.92
1252990--1253166	72	2.5	72	91	0	282	45	18	5	29	1.72
1253426--1253484	26	2.2	27	87	3	84	27	1	42	28	1.65
1257319--1257467	79	1.9	79	87	0	217	34	14	22	28	1.93
1257425--1257498	28	2.6	28	82	4	96	29	20	27	22	1.98
1257451--1257654	79	2.6	80	90	2	322	29	16	27	26	1.97
1257609--1257684	27	2.8	28	89	2	109	21	21	34	23	1.97
1257292--1257733	186	2.4	186	78	3	444	32	14	25	27	1.95
1257664--1257901	102	2.3	103	86	3	329	34	11	23	29	1.91
1257664--1257901	51	4.6	52	81	5	270	34	11	23	29	1.91
1259297--1259348	19	2.6	19	81	6	59	30	15	13	40	1.86
1263405--1263523	34	3.5	34	86	2	166	23	2	34	39	1.68
1263463--1263520	12	5.0	12	69	23	52	20	1	37	39	1.63
1267507--1267532	13	2.0	13	100	0	52	30	15	15	38	1.88
1267487--1267550	32	2.0	33	87	3	94	28	14	17	40	1.88
1268229--1268272	21	2.1	21	83	8	54	25	31	4	38	1.76
1269591--1269633	20	2.1	20	82	4	50	13	27	39	18	1.89
1272178--1272208	15	2.1	15	93	0	53	12	22	16	48	1.80
1274011--1274055	21	2.1	21	84	8	56	22	20	4	53	1.63
1276270--1276295	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276250--1276313	32	2.0	33	87	3	94	28	14	17	40	1.88
1277439--1277645	79	2.6	79	83	3	247	29	16	28	25	1.97
1277597--1277668	28	2.6	28	88	0	99	23	19	34	22	1.96
1280051--1280170	20	5.8	20	72	14	73	42	13	15	29	1.84
1280102--1280128	13	2.1	13	100	0	54	40	14	14	29	1.86
1280188--1280255	19	3.9	18	76	23	83	38	14	11	35	1.83
1280210--1280234	13	1.9	13	100	0	50	32	16	16	36	1.90
1280191--1280253	32	2.0	32	96	0	117	36	15	12	34	1.86
1282270--1282294	12	2.1	12	100	0	50	8	0	52	40	1.31
1282250--1282367	34	3.4	34	87	2	173	23	3	35	37	1.72
1283273--1283313	15	2.7	15	88	0	64	24	53	7	14	1.66
1283413--1283472	27	2.2	27	93	0	102	26	40	1	31	1.66
1283730--1283912	72	2.6	72	84	0	233	30	6	17	45	1.74
1286687--1286767	26	3.2	26	72	8	69	24	4	20	49	1.69
1291217--1291282	24	2.7	24	73	4	60	22	4	24	48	1.69
1293064--1293134	35	1.9	38	83	8	94	46	0	0	53	1.00
1300432--1300462	12	2.5	13	89	10	55	45	0	0	54	0.99
1300909--1300946	16	2.4	16	90	0	67	52	0	0	47	1.00
1301433--1301513	32	2.7	29	75	9	81	48	0	6	45	1.27
1305220--1305294	20	3.8	20	82	7	89	32	16	13	38	1.87
1305132--1305342	91	2.4	91	87	4	295	31	15	11	40	1.84
1313233--1313726	28	17.5	28	83	4	562	22	17	30	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314976--1315031	4	14.8	4	85	10	73	1	1	17	78	0.92
1314974--1315071	18	5.4	17	75	16	65	3	3	13	80	0.95
1314973--1315067	8	11.8	8	78	6	75	3	3	12	81	0.94
1327304--1327333	10	2.9	10	95	5	51	50	0	13	36	1.42
1329002--1329039	20	1.9	20	94	0	67	42	10	15	31	1.81
1339761--1339818	1	58.0	1	78	0	53	87	6	5	0	0.65
1339760--1339811	19	2.9	17	83	13	68	86	9	3	0	0.69
1339761--1339825	11	5.9	11	79	12	62	86	9	4	0	0.71
1339763--1339822	14	4.2	14	75	16	61	86	8	5	0	0.69
1339761--1339822	22	2.9	22	85	2	81	87	8	4	0	0.68
1339791--1339829	14	3.0	13	85	7	53	87	7	5	0	0.68
1341068--1342032	28	34.6	28	81	8	865	28	27	17	25	1.98
1347002--1347072	29	2.4	29	83	0	79	35	5	5	53	1.48
1347002--1347072	19	3.7	20	75	5	65	35	5	5	53	1.48
1349010--1349066	21	2.7	21	100	0	114	43	10	19	26	1.83
1349097--1349161	21	3.6	19	73	26	70	44	15	12	27	1.82
1349115--1349140	13	2.0	13	100	0	52	38	15	15	30	1.88
1349097--1349161	34	2.0	33	93	6	114	44	15	12	27	1.82
1351727--1351751	13	1.9	13	100	0	50	36	16	16	32	1.90
1351707--1351773	33	2.0	33	85	0	89	32	10	14	41	1.80
1351793--1351817	13	1.9	13	100	0	50	32	16	16	36	1.90
1356737--1356767	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1358849--1358886	13	2.9	13	96	0	67	34	18	15	31	1.92
1358998--1359043	21	2.2	20	81	11	58	32	19	4	43	1.71
1361349--1361405	21	2.7	21	100	0	114	43	10	19	26	1.83
1361436--1361500	34	2.0	33	90	6	105	44	13	12	29	1.81
1365406--1365505	49	2.0	49	98	0	191	45	5	21	29	1.73
1367329--1367353	13	1.9	13	100	0	50	32	16	16	36	1.90
1367401--1367474	22	3.5	22	79	7	98	24	24	10	40	1.87
1367381--1367480	10	9.7	10	65	18	53	24	26	10	40	1.86
1367381--1367478	42	2.4	41	92	1	169	24	26	9	39	1.85
1367521--1367563	22	2.0	22	100	0	86	27	23	13	34	1.93
1367999--1368065	37	1.9	35	85	11	93	32	10	25	31	1.89
1372930--1372954	13	1.9	13	100	0	50	32	16	16	36	1.90
1373003--1373076	22	3.5	22	79	7	98	24	24	10	40	1.87
1372982--1373080	42	2.4	42	91	0	162	25	26	9	39	1.85
1373022--1373082	10	5.9	10	70	14	52	22	27	9	39	1.86
1373133--1373175	22	2.0	22	95	0	77	27	20	13	37	1.91
1373611--1373677	37	1.9	35	85	11	93	32	10	25	31	1.89
1376163--1376204	18	2.5	16	85	14	66	47	0	14	38	1.44
1378486--1378525	18	2.2	19	86	8	57	5	15	2	77	1.04
1378169--1378787	305	2.0	310	93	4	1052	24	19	10	45	1.82
1380551--1380577	14	1.9	14	100	0	54	48	7	0	44	1.31
1381896--1381927	16	2.1	16	94	5	57	34	6	25	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388985--1389026	16	2.6	16	81	11	50	28	7	7	57	1.52
1389489--1389548	27	2.2	27	84	0	84	26	30	11	31	1.92
1389622--1389692	27	2.6	27	88	0	97	25	35	12	26	1.92
1389626--1389706	27	3.0	27	83	5	92	24	35	14	24	1.94
1389503--1389797	118	2.5	117	85	3	369	22	29	13	34	1.93
1389562--1389801	30	7.9	31	74	12	135	20	30	14	34	1.93
1389680--1389768	33	2.8	32	80	6	101	19	26	16	37	1.93
1389772--1390073	32	9.7	32	79	10	258	20	31	12	35	1.90
1389489--1390073	94	6.5	89	72	12	310	21	30	13	34	1.92
1389897--1390074	27	6.1	27	75	18	70	21	32	12	33	1.90
1390128--1390801	52	13.4	52	77	10	530	24	25	16	33	1.96
1390205--1390693	95	5.0	95	79	8	502	24	25	16	32	1.96
1390161--1390801	147	4.3	146	77	11	493	24	25	17	32	1.96
1397193--1397267	20	3.8	20	85	0	105	32	16	13	38	1.87
1402345--1402420	38	2.0	39	84	7	102	80	7	5	6	1.03
1403654--1403717	34	1.9	34	83	3	85	26	25	12	35	1.91
1403726--1404093	59	6.4	54	73	15	204	24	31	13	30	1.93
1403726--1404264	27	17.9	31	74	11	269	22	30	12	34	1.91
1403807--1403894	30	3.2	27	78	13	72	26	31	13	28	1.94
1403697--1404093	177	2.3	167	78	10	406	24	31	13	30	1.93
1403726--1404131	204	2.0	202	87	1	589	23	30	12	32	1.92
1403981--1404264	32	8.9	33	75	11	236	20	30	11	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403981--1404264	66	4.5	64	78	6	231	20	30	11	36	1.89
1404232--1404285	27	2.0	27	85	0	72	24	31	11	33	1.90
1404324--1405114	52	15.8	51	77	8	542	25	25	15	33	1.95
1404319--1404956	103	6.4	104	79	9	560	25	26	15	32	1.96
1404319--1404956	155	4.3	153	79	9	645	25	26	15	32	1.96
1404531--1404912	93	4.0	93	78	10	387	25	26	16	31	1.97
1404376--1404863	239	2.0	245	84	5	641	25	26	15	31	1.96
1404717--1405006	101	2.9	102	80	7	279	25	24	15	34	1.95
1405074--1405199	61	2.1	61	85	5	166	25	21	11	41	1.87
1411884--1411923	21	1.9	21	85	10	55	25	35	0	40	1.56

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