genome.fa.s500.2.7.7.80.10.50.1000.6.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: Scaffold500
Parameters: 2 7 7 80 10 50 1000
Length:  2046043

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

This is table  6  of  10  ( 1137 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)
865653--865677	2	12.5	2	100	0	50	48	0	0	52	1.00
869961--870021	21	3.0	21	72	15	65	40	0	0	59	0.98
870193--870246	26	2.0	27	85	3	74	62	3	0	33	1.12
870283--870323	20	2.0	21	85	4	57	58	2	7	31	1.38
872830--872858	3	9.7	3	100	0	58	65	0	34	0	0.93
872848--872901	24	2.2	25	81	15	69	48	5	46	0	1.25
873331--873363	16	2.1	16	94	0	57	60	3	0	36	1.12
878386--878429	2	22.0	2	100	0	88	50	0	50	0	1.00
878872--878951	40	2.0	41	92	2	135	42	23	13	20	1.88
879639--879698	28	2.1	28	100	0	120	26	18	6	48	1.72
882825--882857	3	11.0	3	100	0	66	33	0	0	66	0.92
883754--883823	30	2.3	30	76	13	72	52	0	1	45	1.09
885353--885381	6	5.0	6	91	8	51	65	0	0	34	0.93
885351--885393	11	3.8	11	84	6	59	60	0	0	39	0.97
885351--885393	23	1.9	22	85	4	59	60	0	0	39	0.97
889134--889307	50	3.5	50	80	1	188	33	5	18	41	1.75
889201--889320	50	2.4	50	80	5	127	34	10	17	38	1.83
889994--890502	255	2.0	255	99	0	1000	37	20	17	25	1.94
893957--894144	50	3.8	50	85	2	252	31	16	21	30	1.95
894818--894895	38	2.0	38	85	7	104	53	3	11	30	1.54
901808--901882	33	2.3	33	83	4	89	38	5	21	34	1.76
904272--904325	21	2.5	20	77	11	54	35	0	18	46	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
904285--904325	21	2.0	21	95	0	73	36	0	12	51	1.40
904288--904335	21	2.4	21	86	6	64	33	0	14	52	1.42
905598--905636	20	2.0	20	85	10	53	51	2	0	46	1.14
905580--905622	10	3.9	11	76	11	52	48	0	0	51	1.00
906001--906217	34	6.4	34	85	2	276	25	7	26	40	1.82
906001--906217	102	2.1	101	91	1	353	25	7	26	40	1.82
910631--910849	34	6.5	34	85	2	280	25	7	26	40	1.82
910631--910849	102	2.2	101	91	1	357	25	7	26	40	1.82
914521--914609	27	3.3	26	80	14	92	58	3	3	34	1.31
916472--916512	2	21.0	2	95	5	75	51	0	0	48	1.00
916945--916970	2	13.0	2	100	0	52	0	0	50	50	1.00
917609--917639	6	5.2	6	92	0	53	51	12	0	35	1.40
917620--917656	10	3.5	10	92	7	56	48	10	0	40	1.38
919347--919399	22	2.5	22	79	14	58	43	0	0	56	0.99
924320--924365	14	3.1	15	81	9	58	45	0	0	54	0.99
924283--924391	57	1.9	57	81	12	134	47	0	0	52	1.00
927776--927842	11	6.5	11	76	13	70	31	0	0	68	0.90
932132--932157	1	26.0	1	100	0	52	100	0	0	0	0.00
934642--934676	2	17.5	2	87	0	52	45	0	2	51	1.16
938992--939465	159	3.0	159	88	2	650	23	25	17	33	1.96
946706--946730	6	4.2	6	100	0	50	16	0	0	84	0.63
948050--948078	12	2.3	13	94	5	51	10	6	0	82	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
951289--951346	29	2.0	29	100	0	116	27	6	13	51	1.66
951294--951356	29	2.2	29	88	5	92	28	9	12	49	1.72
951399--951446	19	2.6	18	75	12	53	62	2	0	35	1.07
958271--958304	8	4.0	9	88	11	54	32	0	0	67	0.91
958271--958304	17	2.0	17	94	0	59	32	0	0	67	0.91
966507--966544	14	2.5	16	83	12	53	42	2	0	55	1.14
966691--966753	17	3.4	17	68	19	54	46	1	7	44	1.42
966681--966756	39	1.9	39	100	0	152	42	2	10	44	1.52
969511--969551	21	1.9	22	85	14	59	48	0	0	51	1.00
976943--976977	15	2.4	15	90	4	54	51	2	0	45	1.16
977314--977390	15	4.9	15	76	14	57	54	1	0	44	1.08
977525--977569	16	2.8	17	86	10	67	48	0	0	51	1.00
978487--978532	22	2.0	23	87	4	67	50	0	0	50	1.00
978523--978587	30	2.2	30	83	10	80	43	0	0	56	0.99
978540--978583	22	2.1	20	87	8	61	47	0	0	52	1.00
978536--978587	10	5.4	9	77	20	52	40	0	0	59	0.97
978491--978589	30	3.1	30	71	20	78	46	0	0	53	1.00
989672--989796	64	1.9	65	88	4	191	42	8	3	45	1.51
990105--990138	17	2.0	17	88	0	50	38	5	5	50	1.51
1002088--1002126	20	2.0	20	90	10	62	5	28	0	66	1.12
1004325--1004368	2	22.5	2	95	4	81	0	47	0	52	1.00
1004331--1004390	21	3.0	20	86	11	72	1	40	0	58	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1008099--1008131	2	16.5	2	100	0	66	51	48	0	0	1.00
1009503--1009602	21	5.0	20	74	14	82	41	0	4	55	1.19
1009525--1009563	11	3.7	10	86	6	51	51	0	0	48	1.00
1009515--1009606	10	9.3	10	77	11	73	42	0	2	55	1.12
1009547--1009599	27	2.0	27	85	7	72	41	0	1	56	1.10
1009503--1009652	58	2.7	53	75	16	142	40	0	4	54	1.26
1009513--1009653	21	7.2	20	68	19	75	41	0	3	53	1.23
1013404--1013455	27	1.9	27	96	0	95	25	0	11	63	1.28
1014459--1014485	2	13.5	2	100	0	54	51	0	0	48	1.00
1018438--1018464	2	13.5	2	100	0	54	51	0	0	48	1.00
1020718--1020761	17	2.5	17	85	7	52	61	0	0	38	0.96
1023225--1023273	24	2.0	24	84	7	64	36	0	2	61	1.08
1026728--1026756	2	14.5	2	100	0	58	51	0	0	48	1.00
1027728--1027807	40	2.0	40	92	2	135	11	17	22	48	1.78
1028059--1028096	16	2.5	15	86	4	58	57	0	0	42	0.98
1029023--1029122	32	3.1	32	84	2	103	39	31	16	14	1.87
1029026--1029119	48	2.0	48	82	0	116	40	27	17	14	1.89
1029167--1029205	15	2.6	15	84	8	53	53	33	2	10	1.48
1029309--1029348	13	3.0	13	88	3	62	67	2	0	30	1.04
1031492--1031529	13	3.0	13	84	3	51	42	0	0	57	0.98
1033904--1033940	2	18.5	2	94	0	65	0	48	2	48	1.15
1040587--1040628	3	14.0	3	89	0	66	30	2	2	64	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046668--1046696	12	2.5	12	94	5	51	58	6	0	34	1.25
1047762--1047794	2	16.5	2	100	0	66	51	0	48	0	1.00
1051848--1051895	16	3.0	17	85	8	57	52	0	0	47	1.00
1051857--1051905	14	3.3	15	86	11	57	55	2	0	42	1.11
1051965--1052005	21	2.0	21	85	9	57	63	0	0	36	0.95
1052144--1052199	29	1.9	29	85	7	78	41	0	0	58	0.98
1052778--1052829	21	2.5	21	78	3	61	46	0	0	53	1.00
1066060--1066100	21	2.0	21	95	0	73	21	51	14	12	1.75
1067590--1067657	22	3.0	22	71	26	61	51	1	2	44	1.25
1068149--1068200	17	2.9	17	80	5	59	67	1	0	30	1.02
1068841--1068878	16	2.4	16	90	0	58	47	2	0	50	1.15
1069604--1069663	31	2.0	31	83	6	79	61	1	1	35	1.16
1069817--1069843	4	6.8	4	100	0	54	22	0	0	77	0.76
1071294--1071342	13	3.8	13	75	25	50	42	0	0	57	0.99
1071287--1071351	25	2.6	24	73	22	62	46	0	0	53	1.00
1071807--1071895	31	2.8	31	73	21	85	50	0	1	48	1.08
1071839--1071894	28	2.0	27	86	3	76	53	0	0	46	1.00
1071839--1071924	30	3.0	29	80	12	81	55	2	0	41	1.12
1074622--1074671	16	3.3	15	83	10	57	60	0	0	40	0.97
1074612--1074671	27	2.2	27	78	0	66	56	0	0	43	0.99
1075753--1075801	17	2.7	18	87	6	64	51	0	2	46	1.12
1080093--1080118	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081173--1081231	31	1.9	31	92	0	100	22	20	10	47	1.79
1081662--1081705	22	2.0	21	82	4	52	34	6	2	56	1.38
1083401--1083426	2	13.0	2	100	0	52	50	0	0	50	1.00
1085350--1085457	26	4.3	26	68	23	72	36	1	0	61	1.13
1085384--1085443	17	3.6	16	78	14	59	35	1	1	61	1.16
1085495--1085534	18	2.2	18	86	0	53	75	0	2	22	0.93
1086428--1086454	2	13.5	2	100	0	54	0	48	0	51	1.00
1090703--1090875	28	6.2	27	72	18	124	57	0	0	41	1.07
1090742--1090775	17	2.1	16	88	5	50	61	0	0	38	0.96
1090663--1090877	82	2.6	83	90	6	341	57	0	0	40	1.08

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