genome.fa.s52.2.7.7.80.10.50.1000.5.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: Scaffold52
Parameters: 2 7 7 80 10 50 1000
Length:  1774672

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1067 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)
955530--955748	102	2.2	101	89	1	339	25	7	26	40	1.83
956926--957003	29	2.7	29	85	2	93	46	3	11	38	1.59
957306--957337	14	2.3	15	84	15	50	37	0	0	62	0.95
959734--959783	20	2.8	18	75	16	50	58	8	6	28	1.51
960604--960754	34	4.5	33	82	3	167	43	24	7	24	1.81
960604--960754	68	2.2	68	83	2	196	43	24	7	24	1.81
965212--965325	34	3.4	34	93	0	192	42	26	7	22	1.81
966281--966333	27	2.0	27	82	14	65	33	0	3	62	1.13
966529--966557	3	9.7	3	100	0	58	31	0	0	68	0.89
968427--968454	2	14.0	2	100	0	56	50	0	0	50	1.00
968477--968551	31	2.6	29	79	12	82	50	1	4	44	1.29
969780--969863	29	2.9	29	74	12	82	44	3	11	40	1.59
972321--972350	2	15.0	2	100	0	60	50	0	0	50	1.00
973149--973186	19	2.0	20	85	15	53	21	0	15	63	1.31
973692--973736	2	22.5	2	90	0	63	42	0	6	51	1.28
974504--974574	20	3.6	20	80	1	81	53	5	1	39	1.33
975785--975867	10	8.6	10	70	15	50	43	1	0	55	1.07
975785--975848	19	3.3	20	71	20	55	43	0	0	56	0.99
975888--975943	20	2.7	21	83	13	71	28	0	1	69	0.98
975907--975950	12	3.7	12	84	9	63	27	2	0	70	0.99
976320--976367	22	2.1	23	88	11	73	25	6	8	60	1.49
978413--978555	67	2.1	69	80	5	166	47	11	2	38	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978504--978555	20	2.7	20	87	3	70	53	11	0	34	1.37
979791--979830	20	2.0	20	85	0	53	52	2	0	45	1.14
979890--979943	13	4.3	12	79	13	56	27	5	0	66	1.13
980629--980676	23	2.2	22	82	10	55	41	4	2	52	1.32
980748--980772	13	1.9	13	100	0	50	32	0	4	64	1.12
981123--981180	28	2.1	28	84	9	75	46	0	0	53	1.00
983564--983588	12	2.1	12	100	0	50	60	0	40	0	0.97
986823--986878	29	1.9	29	85	7	78	51	10	1	35	1.47
986919--986970	20	2.7	20	87	3	70	61	5	0	32	1.20
986797--986971	67	2.6	68	73	6	185	52	9	2	36	1.46
991889--991958	27	2.6	27	80	13	72	45	22	5	25	1.74
993116--993155	20	2.0	20	85	9	55	50	0	0	50	1.00
993202--993262	11	5.5	11	73	19	56	24	0	4	70	1.07
993205--993255	21	2.4	20	83	9	57	23	0	5	70	1.09
995747--995806	29	2.1	28	84	12	77	48	11	1	38	1.50
995752--995894	67	2.1	69	85	5	202	48	11	2	37	1.51
995843--995894	20	2.7	20	87	3	70	53	11	0	34	1.37
997130--997169	20	2.0	20	85	0	53	52	2	0	45	1.14
997229--997281	24	2.1	26	83	13	67	26	5	0	67	1.12
997959--998006	23	2.2	22	82	10	55	43	2	2	52	1.24
998455--998512	28	2.1	28	84	9	75	46	0	0	53	1.00
1002138--1002320	50	3.6	50	94	0	312	30	20	20	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006736--1006917	101	1.8	100	95	1	328	32	20	18	28	1.96
1006733--1006915	50	3.6	50	93	0	312	32	20	18	28	1.96
1007041--1007096	20	2.9	18	73	17	51	44	0	0	55	0.99
1007072--1007111	16	2.5	17	80	19	50	45	2	0	52	1.14
1007514--1007540	2	13.5	2	100	0	54	51	0	0	48	1.00
1009210--1009265	29	1.9	29	85	7	78	53	10	1	33	1.46
1009306--1009357	20	2.7	20	87	3	70	61	5	0	32	1.20
1012150--1012196	3	15.7	3	100	0	94	31	0	0	68	0.90
1013194--1013243	20	2.8	18	75	16	50	58	8	6	28	1.51
1014602--1014636	18	1.9	18	100	0	70	8	0	28	62	1.24
1014999--1015054	10	5.5	11	75	12	50	37	0	1	60	1.07
1017831--1017857	2	13.5	2	100	0	54	51	0	0	48	1.00
1019082--1019187	27	3.9	27	72	16	83	41	1	2	53	1.26
1019098--1019186	20	4.7	18	72	19	58	40	2	3	53	1.30
1019945--1019997	16	3.2	16	74	12	54	41	0	1	56	1.10
1024192--1024234	2	22.0	2	95	4	79	0	48	0	51	1.00
1024959--1025013	28	2.0	28	88	0	83	40	0	0	60	0.97
1026102--1026146	2	22.5	2	100	0	90	51	0	0	48	1.00
1026251--1026294	18	2.4	19	88	7	65	54	0	0	45	0.99
1027362--1027437	17	4.5	17	76	14	68	52	0	1	46	1.08
1027410--1027456	18	2.6	18	80	16	53	48	2	2	46	1.25
1027381--1027435	12	4.3	12	77	18	58	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027462--1027528	31	2.2	31	86	2	91	50	0	0	49	1.00
1027811--1027855	5	9.0	5	92	0	63	62	0	37	0	0.96
1031201--1031270	35	2.0	35	94	2	124	38	18	24	18	1.93
1033733--1033773	18	2.3	18	86	0	55	56	2	0	41	1.13
1033994--1034045	14	4.0	13	80	9	70	57	0	0	42	0.98
1035613--1035640	14	2.0	14	100	0	56	57	0	0	42	0.99
1040041--1040083	14	3.1	14	86	6	52	53	2	6	37	1.41
1045329--1045477	61	2.4	61	80	9	162	39	2	2	56	1.22
1045411--1045473	17	3.8	16	73	10	54	42	1	1	53	1.19
1045479--1045535	21	2.8	21	76	10	64	29	5	0	64	1.15
1045479--1045531	22	2.5	21	84	3	61	30	3	0	66	1.10
1045940--1045967	2	14.0	2	100	0	56	50	0	0	50	1.00
1047148--1047197	21	2.4	22	78	18	61	54	0	0	46	1.00
1047426--1047463	15	2.5	15	86	0	58	36	2	0	60	1.11
1048055--1048081	2	13.5	2	100	0	54	51	0	0	48	1.00
1050868--1050930	16	3.8	16	71	24	51	58	0	0	41	0.98
1050868--1050931	25	2.6	25	100	0	128	57	0	0	42	0.98
1050868--1050983	9	13.8	8	69	21	60	57	0	0	41	1.04
1051839--1052026	18	10.4	18	67	15	111	30	21	27	20	1.98
1051784--1052010	36	6.3	36	91	2	332	30	23	27	18	1.98
1052948--1053001	27	2.0	27	92	0	90	48	0	16	35	1.47
1057313--1057396	10	8.4	10	72	13	57	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1057313--1057368	21	2.7	20	78	8	58	60	0	0	39	0.97
1057323--1057373	16	3.2	16	78	10	68	60	0	0	39	0.97
1058119--1058154	19	1.9	19	88	5	56	72	0	0	27	0.85
1058503--1058567	28	2.3	28	86	0	85	55	1	4	38	1.30
1058779--1058828	3	16.7	3	100	0	100	32	0	0	68	0.90
1060556--1060629	29	2.8	25	73	16	76	44	0	1	54	1.08
1060611--1060640	2	15.0	2	92	0	51	46	0	3	50	1.18
1061814--1061863	20	2.5	21	83	6	59	58	2	0	40	1.10
1062129--1062167	19	2.0	20	90	5	62	33	2	0	64	1.08
1062265--1062337	33	2.2	33	83	9	87	56	1	0	42	1.08
1062538--1062572	3	11.7	3	100	0	70	31	0	0	68	0.90
1063954--1063987	14	2.5	14	90	4	52	41	0	0	58	0.98
1064103--1064893	280	2.8	280	99	0	1555	45	7	5	41	1.56
1068717--1068772	23	2.4	24	75	3	60	53	3	3	39	1.36
1084793--1084833	12	3.4	12	93	0	64	26	36	9	26	1.88
1085838--1085943	33	3.1	35	71	17	105	54	0	0	45	0.99
1086348--1086389	22	1.9	22	90	9	68	61	0	0	38	0.96
1086990--1087031	22	1.9	22	85	9	59	59	0	0	40	0.97
1089233--1089263	3	10.3	3	100	0	62	32	0	0	67	0.91
1089911--1089950	21	1.9	21	85	10	55	47	0	0	52	1.00
1090805--1090846	21	2.0	21	100	0	84	23	9	23	42	1.83
1091381--1091422	17	2.5	17	84	7	50	54	2	2	40	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092108--1092153	21	2.1	23	84	8	60	58	4	2	34	1.30
1092457--1092487	14	2.1	15	94	5	55	74	0	0	25	0.82
1094952--1094982	2	15.5	2	100	0	62	51	0	48	0	1.00
1095080--1095116	2	18.5	2	100	0	74	48	0	0	51	1.00
1098908--1098951	4	10.8	4	90	4	52	52	15	0	31	1.44
1098921--1098966	2	23.0	2	81	0	56	50	8	0	41	1.33
1098905--1098955	20	2.5	20	87	3	66	50	13	0	35	1.42
1099238--1099276	21	1.9	20	89	5	60	38	2	0	58	1.12
1099459--1099495	19	1.9	19	88	0	56	37	0	2	59	1.12
1099633--1099671	16	2.4	16	86	4	51	46	0	0	53	1.00

Tables:   1   2   3   4   5   6   7   8   9