genome.fa.s90.2.7.7.80.10.50.1000.7.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: Scaffold90
Parameters: 2 7 7 80 10 50 1000
Length:  1653315

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

This is table  7  of  10  ( 1200 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)
984711--984828	39	3.0	39	77	4	112	44	5	2	48	1.38
988281--988305	2	12.5	2	100	0	50	0	48	0	52	1.00
992239--992308	17	3.9	19	76	12	60	45	1	0	52	1.09
992108--992415	150	2.1	149	79	10	337	51	2	5	40	1.39
996421--996653	76	3.0	77	78	7	249	34	13	24	27	1.93
996421--996701	76	3.6	76	77	7	181	34	12	24	28	1.92
996667--996802	51	2.7	50	83	8	143	36	9	24	30	1.87
999155--999180	13	2.0	13	100	0	52	38	15	15	30	1.88
1001153--1001221	12	5.7	12	73	10	59	53	0	1	44	1.09
1001140--1001228	37	2.4	37	94	0	151	55	0	1	43	1.07
1009570--1009610	22	2.0	21	86	13	59	31	21	4	41	1.74
1011209--1011275	35	1.9	35	96	0	125	43	2	17	35	1.65
1011209--1011284	35	2.2	35	90	4	118	43	2	19	34	1.65
1011884--1011947	20	3.6	19	71	28	68	28	15	18	37	1.92
1011905--1011929	13	1.9	13	100	0	50	32	16	16	36	1.90
1011882--1011947	33	2.0	33	96	0	123	28	15	18	37	1.91
1012020--1012045	13	2.0	13	100	0	52	38	15	15	30	1.88
1012002--1012065	33	2.0	32	87	9	94	40	17	14	28	1.88
1013397--1013451	19	2.8	19	83	2	65	38	20	12	29	1.89
1014279--1014320	22	1.9	22	85	0	57	38	11	2	47	1.53
1014879--1014935	2	29.0	2	89	3	89	54	0	0	45	0.99
1015433--1015478	23	2.0	23	86	4	65	54	2	2	41	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016020--1016065	20	2.2	21	84	3	58	39	2	0	58	1.10
1016084--1016135	14	3.6	14	76	23	63	67	0	0	32	0.91
1017332--1017368	3	12.3	3	100	0	74	32	0	0	67	0.91
1017649--1017725	20	3.8	20	86	6	111	24	12	15	46	1.81
1017688--1017772	33	2.6	33	96	0	161	28	15	14	42	1.85
1020076--1020292	51	4.3	51	86	1	229	29	23	12	33	1.92
1020358--1020431	28	2.6	29	85	4	98	22	29	20	27	1.98
1020468--1020541	28	2.7	27	83	8	87	21	27	21	29	1.99
1020279--1020666	110	3.6	108	81	4	458	25	23	16	34	1.95
1020578--1020651	28	2.7	26	72	8	67	21	28	21	28	1.99
1020279--1020698	217	1.9	217	90	0	662	25	24	16	33	1.95
1020637--1020752	51	2.3	51	83	5	155	31	28	8	31	1.87
1020686--1020949	79	3.3	78	83	6	300	28	25	11	34	1.91
1029662--1029691	2	15.0	2	100	0	60	50	0	0	50	1.00
1031251--1031311	31	2.0	31	93	0	104	24	9	8	57	1.58
1032748--1032802	2	27.5	2	100	0	110	50	0	0	49	1.00
1034980--1035009	6	5.0	6	95	0	51	30	16	53	0	1.44
1035435--1035487	25	2.1	25	100	0	106	39	22	11	26	1.88
1038028--1038070	3	14.3	3	95	0	77	67	2	0	30	1.03
1044421--1044468	3	16.0	3	100	0	96	33	0	0	66	0.92
1050231--1050256	1	26.0	1	100	0	52	0	0	0	100	0.00
1050356--1050471	15	7.7	15	67	22	64	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050443--1050481	13	3.0	13	85	7	53	66	2	0	30	1.05
1055396--1055462	33	2.0	33	94	0	116	29	22	17	29	1.97
1062797--1062904	21	5.3	18	66	30	58	10	47	1	40	1.48
1062800--1062918	42	2.8	42	92	0	193	9	45	1	43	1.46
1062834--1062908	12	6.8	11	75	15	50	9	48	2	40	1.50
1067334--1067372	4	9.8	4	94	0	69	74	0	2	23	0.94
1068456--1068590	50	2.7	49	90	2	198	40	14	18	26	1.88
1074336--1074389	20	2.6	22	88	8	78	37	11	20	31	1.88
1074446--1074562	52	2.3	51	83	4	146	31	18	14	35	1.91
1085935--1086255	57	5.6	57	78	3	288	26	29	13	31	1.93
1085965--1086245	85	3.3	85	82	3	341	27	28	12	32	1.93
1085935--1086255	28	11.2	28	80	4	275	26	29	13	31	1.93
1087143--1087318	79	2.2	78	80	8	187	35	12	25	26	1.91
1087346--1087400	28	1.9	28	85	3	74	40	20	20	20	1.92
1087432--1087504	28	2.6	28	77	0	92	32	16	26	24	1.96
1090183--1090235	21	2.6	21	88	8	74	33	16	11	37	1.85
1090331--1090391	27	2.3	27	82	0	86	26	29	9	34	1.88
1090329--1090405	27	2.7	28	76	10	84	31	31	9	28	1.88
1090380--1090606	31	7.2	31	82	4	224	29	32	17	20	1.95
1090380--1090606	64	3.6	63	81	6	248	29	32	17	20	1.95
1090674--1090976	52	5.8	52	76	3	238	25	21	15	37	1.93
1090827--1090980	51	3.0	51	80	0	173	24	22	15	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095815--1095896	39	2.1	40	95	2	148	21	30	28	19	1.98
1101998--1102024	2	13.5	2	100	0	54	48	0	0	51	1.00
1104182--1104257	20	3.7	20	78	13	73	39	11	17	31	1.85
1109361--1109450	31	2.9	31	79	0	108	36	12	15	35	1.85
1110952--1110995	22	2.0	22	86	0	61	45	9	6	38	1.63
1115935--1115960	13	2.0	13	100	0	52	38	15	15	30	1.88
1124006--1124176	32	5.5	32	83	3	165	22	30	16	29	1.96
1124029--1124216	32	5.9	32	82	6	179	21	29	14	33	1.94
1124029--1124216	64	3.0	63	83	6	204	21	29	14	33	1.94
1124059--1124216	64	2.5	64	84	7	205	20	29	15	34	1.93
1124211--1124278	34	2.0	34	85	8	93	19	35	13	32	1.90
1124465--1124630	27	6.1	27	84	0	215	21	36	14	27	1.93
1124605--1124702	32	3.0	32	79	5	115	21	30	11	36	1.88
1124689--1124757	32	2.2	32	87	7	97	26	31	23	18	1.97
1124830--1125214	52	7.5	52	74	10	283	25	23	15	34	1.95
1124760--1125108	101	3.4	100	82	7	416	25	23	16	35	1.95
1124760--1125267	104	4.9	100	77	8	427	25	24	15	34	1.95
1124763--1125267	205	2.4	206	81	5	556	25	24	15	34	1.95
1125275--1125854	49	11.7	49	73	8	356	25	25	16	32	1.96
1124777--1125696	243	3.7	243	79	7	812	25	25	15	33	1.96
1124780--1125268	52	9.5	49	73	10	216	25	24	15	34	1.95
1124780--1125696	49	18.5	49	72	12	468	25	25	15	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125711--1125838	52	2.5	52	77	2	123	25	24	18	32	1.97
1128017--1128078	31	2.0	31	100	0	124	25	29	12	32	1.93
1133436--1133477	21	2.0	21	86	9	59	21	9	2	66	1.32
1139330--1139720	195	2.0	193	93	2	667	40	14	12	32	1.84
1139700--1139911	87	2.4	87	84	1	280	30	17	16	35	1.92
1145113--1145152	20	2.0	21	85	5	55	50	2	0	47	1.14
1145523--1145570	20	2.4	20	93	6	80	79	0	14	6	0.92
1145591--1145625	17	2.1	17	89	5	54	57	0	0	42	0.99
1146845--1146927	21	3.8	22	72	13	73	49	0	3	46	1.19
1146841--1146933	44	2.1	43	84	7	125	46	0	3	50	1.17
1146898--1147601	54	13.8	53	79	11	685	39	1	5	53	1.32
1147361--1147448	42	2.2	38	80	16	115	40	0	9	50	1.34
1146842--1147604	313	2.5	306	81	10	772	40	1	5	53	1.31
1147441--1147602	55	3.0	53	88	2	198	35	1	4	58	1.28
1147526--1147604	19	4.3	19	63	18	58	43	2	0	54	1.14
1147557--1147637	38	2.2	38	84	6	103	44	1	3	50	1.27
1147595--1147877	106	2.7	105	83	11	373	40	2	3	54	1.30
1147598--1147877	52	5.4	52	83	11	349	40	2	3	53	1.30
1146842--1147874	493	2.0	503	84	8	1329	40	1	4	53	1.31
1148408--1148448	16	2.6	17	81	14	52	26	4	9	58	1.50
1148627--1148669	14	3.0	14	80	6	50	20	2	0	76	0.89
1149003--1149046	23	2.0	21	82	8	52	63	2	0	34	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149556--1149582	2	13.5	2	100	0	54	0	48	0	51	1.00
1150839--1150912	24	3.1	23	83	14	96	43	0	0	56	0.99
1150869--1150920	12	4.3	12	75	7	52	32	0	0	67	0.91
1150897--1150928	15	2.1	15	94	0	55	37	0	0	62	0.95
1150837--1150919	23	3.5	24	84	12	109	40	0	0	59	0.98
1155253--1155293	19	2.2	19	86	4	57	7	17	4	70	1.28
1157845--1157951	53	2.0	53	98	0	205	37	7	25	29	1.83
1159662--1159709	22	2.2	22	81	7	53	10	10	4	75	1.18
1162347--1162393	19	2.5	19	86	3	69	80	6	12	0	0.88
1162376--1162422	13	3.6	13	80	5	51	85	6	6	2	0.82

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