genome.fa.s4301.2.7.7.80.10.50.1000.3.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: scaffold171
Parameters: 2 7 7 80 10 50 1000
Length:  1364075

Tables:   1   2   3   4   

This is table  3  of  4  ( 369 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)
844554--844615	27	2.3	27	85	0	88	9	17	43	29	1.81
857134--857208	38	2.0	38	89	0	114	34	20	12	33	1.89
861761--861937	50	3.5	50	84	4	212	35	15	12	37	1.85
862675--862714	16	2.6	15	88	7	62	75	2	0	22	0.93
865831--865969	50	2.8	50	83	5	181	32	15	12	39	1.85
873209--873272	31	2.1	31	100	0	128	37	3	9	50	1.51
877345--877372	3	9.3	3	100	0	56	32	0	0	67	0.91
880339--880366	13	2.2	13	100	0	56	25	28	7	39	1.82
882309--882401	37	2.5	38	80	5	109	30	39	13	16	1.87
902776--903744	44	22.2	44	70	11	406	27	24	18	29	1.98
902835--903644	263	3.1	263	96	0	1476	26	24	19	29	1.98
902769--903377	219	2.8	213	76	10	572	27	24	18	28	1.98
903943--904065	43	2.9	43	96	1	221	22	20	21	34	1.96
903738--904282	259	2.1	254	90	3	842	24	23	21	30	1.99
903775--904239	87	5.4	87	79	5	511	25	22	21	30	1.99
905486--905532	7	7.0	7	85	9	71	14	17	0	68	1.22
905482--905532	13	3.8	14	89	7	79	13	17	0	68	1.21
905486--905532	20	2.3	20	96	0	85	14	17	0	68	1.22
905971--906003	12	2.8	12	86	4	50	12	0	9	78	0.95
915651--915948	50	5.8	50	83	2	317	27	21	27	22	1.99
921115--921202	29	3.0	28	77	9	77	32	6	14	45	1.72
928314--928433	63	1.9	62	83	5	152	40	12	14	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
938931--939459	262	2.0	262	97	0	1004	36	8	19	35	1.82
942327--942363	19	1.9	19	100	0	74	48	16	0	35	1.46
942968--943007	21	1.9	21	89	0	62	55	5	5	35	1.44
952607--952671	30	2.1	31	85	2	87	46	7	10	35	1.68
973130--973197	15	4.9	14	71	16	52	41	35	0	23	1.55
973133--973170	15	2.5	15	86	0	58	36	42	0	21	1.53
973664--973942	41	6.8	41	75	8	185	34	25	23	16	1.95
973704--973942	82	2.9	80	79	6	246	34	26	23	15	1.95
974000--974104	40	2.7	39	77	4	113	20	27	20	31	1.97
985950--985992	20	2.2	20	100	0	86	41	13	11	32	1.81
988182--988210	9	3.0	10	90	10	51	20	17	0	62	1.33
989176--989215	18	2.2	19	90	4	64	7	37	0	55	1.29
992573--992597	13	1.9	13	100	0	50	88	0	12	0	0.53
992569--992601	16	2.1	16	88	5	50	84	0	15	0	0.61
1006830--1006855	13	2.0	13	100	0	52	23	0	15	61	1.33
1009300--1009332	11	2.7	13	90	9	52	45	12	6	36	1.66
1010387--1010721	51	6.6	51	75	8	276	28	14	26	29	1.95
1010387--1010725	102	3.4	102	80	10	349	28	15	26	29	1.96
1017346--1017374	14	2.1	14	100	0	58	51	0	13	34	1.42
1017998--1018332	51	6.6	51	72	10	251	28	14	26	30	1.95
1017994--1018336	102	3.4	101	77	11	337	28	14	26	29	1.95
1018204--1018327	50	2.5	49	92	1	194	30	16	23	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028579--1028639	30	2.1	30	84	9	81	49	11	6	32	1.65
1034558--1034709	43	3.5	44	75	9	136	29	25	17	27	1.97
1043063--1043251	50	3.8	50	94	0	315	22	32	20	24	1.98
1049400--1049685	50	5.7	50	84	2	324	21	29	20	28	1.98
1049400--1049685	100	2.8	100	87	0	383	21	29	20	28	1.98
1049400--1049677	150	1.8	151	84	2	380	21	29	20	28	1.98
1055792--1055993	41	5.1	41	80	7	191	19	26	16	36	1.93
1055835--1055936	35	2.7	35	83	8	114	20	26	15	37	1.93
1055794--1055936	76	1.9	76	89	0	223	18	26	18	36	1.94
1055873--1055933	20	3.0	20	69	11	61	19	32	16	31	1.94
1066204--1066415	41	5.2	41	84	2	228	20	27	15	36	1.93
1071798--1072991	597	2.0	597	99	0	2363	29	15	19	36	1.92
1073811--1073852	19	2.2	20	83	12	52	19	42	2	35	1.64
1078496--1078745	33	7.3	34	68	26	138	34	27	19	19	1.96
1078629--1078680	27	1.9	27	96	0	95	30	30	23	15	1.95
1078496--1078859	103	3.5	103	94	1	588	33	28	19	18	1.96
1079979--1080004	11	2.4	11	100	0	52	34	7	11	46	1.69
1082879--1082913	16	2.1	17	89	5	54	40	0	37	22	1.55
1082884--1082919	16	2.1	18	90	10	58	30	0	41	27	1.56
1094672--1094705	18	1.9	18	88	5	52	41	0	35	23	1.55
1109019--1109052	16	2.1	16	88	0	50	23	5	11	58	1.55
1139746--1139774	12	2.3	13	94	5	51	65	6	6	20	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141071--1141467	198	2.0	198	100	0	794	32	24	13	30	1.93
1145756--1145788	17	2.0	17	94	5	59	15	54	0	30	1.41
1156113--1156314	101	2.0	101	87	5	293	23	16	27	31	1.96
1156113--1156305	51	3.8	50	80	3	199	23	17	28	30	1.97
1156219--1156299	26	3.2	26	64	28	64	23	13	29	33	1.93
1156323--1156372	26	1.9	26	100	0	100	16	24	32	28	1.96
1156351--1156491	33	4.0	33	75	17	131	19	19	24	36	1.95
1156384--1156521	42	3.5	40	74	18	137	22	16	26	34	1.95
1156350--1156548	75	2.6	76	91	0	310	21	18	26	34	1.96
1160110--1160137	8	3.5	8	100	0	56	25	0	0	75	0.81
1166529--1166561	17	1.9	17	93	0	57	27	12	18	42	1.85
1168120--1168152	16	2.1	16	100	0	66	36	6	18	39	1.75
1174629--1175071	28	15.8	28	89	0	625	31	23	20	24	1.98
1175182--1175282	26	3.9	26	83	5	114	36	20	21	20	1.95
1175182--1175284	52	2.0	52	86	7	147	36	21	21	20	1.95
1175434--1175795	27	13.5	28	77	12	209	23	19	18	38	1.93
1175437--1175772	80	4.2	79	83	4	363	22	18	19	39	1.92
1175436--1175772	54	6.3	54	86	4	389	22	18	19	39	1.92
1177592--1177636	23	2.0	23	90	0	72	40	24	0	35	1.56
1185296--1185325	5	5.8	5	96	4	51	23	0	0	76	0.78
1186707--1186775	21	3.3	21	85	4	86	39	10	28	21	1.86
1189326--1189403	23	3.4	23	77	11	81	34	20	21	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189370--1189452	22	3.8	22	78	0	94	34	16	24	24	1.95
1189892--1189937	20	2.3	21	85	11	69	21	21	21	34	1.97
1203340--1203391	14	3.7	14	97	0	95	23	9	0	67	1.20
1203432--1203476	12	3.7	12	80	16	56	13	4	8	73	1.23
1203432--1203480	13	3.8	13	84	12	66	14	6	10	69	1.35
1213789--1213952	86	1.9	87	86	3	235	49	5	3	41	1.43
1215026--1215479	50	9.1	50	67	6	195	30	20	21	27	1.98
1215040--1215551	100	5.1	100	87	0	700	30	20	22	26	1.98
1215090--1215551	50	9.2	50	69	3	275	30	20	22	26	1.98
1233080--1233420	170	2.0	171	99	0	675	29	17	14	37	1.90
1234644--1234669	4	6.5	4	100	0	52	26	0	0	73	0.84
1236981--1237026	8	5.8	8	89	0	65	47	4	2	45	1.34
1239981--1240007	12	2.2	12	100	0	54	29	7	0	62	1.22
1250321--1250365	22	2.0	24	82	8	58	17	26	17	37	1.93
1273811--1273860	26	1.9	26	95	0	91	30	16	10	44	1.80
1274342--1274407	31	2.1	31	86	5	89	37	12	22	27	1.90
1274951--1275077	65	2.0	65	98	0	245	45	8	11	34	1.70
1284864--1284893	13	2.3	13	100	0	60	36	13	30	20	1.90
1293064--1293123	22	2.6	22	82	10	68	35	31	5	28	1.79
1293413--1293454	11	3.6	11	90	6	57	71	0	7	21	1.09
1293411--1293455	12	3.8	12	94	5	74	71	0	8	20	1.12
1304173--1304223	26	2.0	26	84	0	66	27	9	25	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317048--1317107	26	2.3	27	80	13	72	25	3	18	53	1.60
1330593--1330631	20	2.0	20	84	0	51	43	12	2	41	1.56
1336919--1336980	27	2.3	27	85	0	88	35	1	16	46	1.56
1337266--1337315	14	3.5	14	78	5	55	72	0	2	26	0.96
1337275--1337313	15	2.5	15	87	4	51	79	0	2	17	0.84
1337261--1337313	8	7.0	8	77	16	51	73	0	1	24	0.93
1339839--1339891	18	3.0	18	91	2	90	49	3	39	7	1.49
1340614--1340770	7	22.3	7	68	8	50	49	30	0	20	1.49
1340621--1340662	22	1.9	22	90	0	66	52	30	0	16	1.44
1340677--1340721	22	2.0	22	86	0	63	53	28	0	17	1.44

Tables:   1   2   3   4