genome.fa.s50.2.7.7.80.10.50.1000.6.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: Scaffold50
Parameters: 2 7 7 80 10 50 1000
Length:  2541760

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

This is table  6  of  16  ( 1865 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)
962164--962479	116	2.8	110	81	8	339	24	21	28	25	1.99
962165--962477	171	1.8	171	90	0	509	24	21	28	25	1.99
962490--963049	62	9.4	60	84	5	660	25	19	28	26	1.99
962490--963055	122	4.7	122	84	8	768	25	19	28	25	1.99
962692--962783	27	3.3	29	61	14	75	22	20	30	26	1.98
962490--963019	232	2.2	234	88	5	762	25	19	28	26	1.99
969143--969344	79	2.6	79	83	1	244	31	15	26	26	1.96
969356--969488	52	2.6	51	84	5	169	30	10	26	32	1.90
971308--971362	20	2.7	20	88	8	76	41	14	16	27	1.87
971394--971461	33	2.1	33	88	2	102	33	19	14	32	1.92
973042--973117	20	3.8	19	79	10	82	39	14	15	30	1.88
979487--979540	21	2.7	20	86	13	76	31	14	16	37	1.89
979582--979636	20	2.6	22	80	11	69	30	14	14	40	1.86
980309--980347	20	2.1	19	85	9	53	23	10	10	56	1.63
987615--987755	27	5.1	27	79	4	138	23	29	14	31	1.95
987634--987796	55	3.0	56	83	4	199	23	31	15	28	1.96
987634--987796	27	6.0	27	83	5	184	23	31	15	28	1.96
987764--988499	32	24.6	28	77	9	312	29	28	18	23	1.98
987665--988548	64	14.9	57	74	11	232	28	28	18	24	1.98
987909--988536	32	20.6	32	79	7	417	30	27	18	23	1.98
987615--988499	28	29.9	28	77	9	208	28	28	18	24	1.98
988428--988551	29	4.1	31	81	10	100	28	25	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988661--988792	48	2.8	48	88	2	176	17	28	18	35	1.94
989526--989600	20	3.8	20	85	0	96	33	12	13	41	1.81
990799--990853	19	2.8	20	84	13	78	38	16	14	30	1.89
993336--993395	13	5.1	13	69	22	60	40	13	16	30	1.87
993350--993414	20	3.6	20	73	26	81	38	12	18	30	1.88
993337--993414	33	2.4	33	100	0	156	38	12	17	30	1.88
1011751--1012158	79	5.2	79	79	2	392	28	23	13	34	1.92
1011751--1012158	158	2.6	157	80	2	460	28	23	13	34	1.92
1013185--1013276	20	4.3	20	70	18	60	40	15	15	29	1.87
1013197--1013247	25	2.0	25	92	0	84	41	13	13	31	1.84
1013218--1013277	20	3.0	21	79	16	81	36	15	16	31	1.90
1013322--1013381	21	2.9	21	80	12	79	40	15	13	31	1.85
1013965--1014039	19	3.8	19	82	8	80	30	17	18	33	1.94
1013985--1014123	21	6.7	21	69	19	87	33	16	17	33	1.92
1014071--1014123	20	2.6	21	91	8	83	35	15	18	30	1.92
1013985--1014185	84	2.4	84	94	0	359	32	18	16	32	1.94
1014168--1014198	13	2.4	13	94	0	53	35	16	12	35	1.87
1015609--1017053	481	3.0	481	98	0	2809	38	17	24	20	1.93
1019245--1019292	1	48.0	1	93	0	69	93	0	2	4	0.39
1019242--1019287	23	2.0	23	100	0	92	86	0	4	8	0.68
1019297--1019353	21	2.7	21	97	0	105	33	10	19	36	1.86
1019409--1019476	19	3.9	19	78	21	85	35	11	14	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019430--1019454	13	1.9	13	100	0	50	36	16	16	32	1.90
1019411--1019473	32	2.0	32	96	0	117	34	12	15	36	1.86
1019516--1019541	13	2.0	13	100	0	52	30	15	15	38	1.88
1019496--1019562	33	2.0	33	88	0	98	25	14	16	43	1.86
1022017--1022089	27	2.7	27	86	2	92	23	36	21	17	1.94
1022043--1022244	78	2.6	79	80	2	219	23	30	17	28	1.97
1034650--1034686	6	5.7	7	81	18	53	89	10	0	0	0.49
1034652--1034696	12	3.7	12	90	3	72	88	8	2	0	0.58
1034651--1034696	19	2.4	18	86	13	65	89	8	2	0	0.57
1035678--1036300	55	11.3	55	91	5	944	29	30	20	20	1.97
1035678--1036276	165	3.6	165	97	0	1094	29	30	20	19	1.97
1036867--1036899	1	33.0	1	100	0	66	100	0	0	0	0.00
1036904--1036960	21	2.7	21	97	0	105	33	10	19	36	1.86
1037016--1037083	19	3.9	19	78	21	85	35	11	14	38	1.83
1037037--1037061	13	1.9	13	100	0	50	36	16	16	32	1.90
1037018--1037080	32	2.0	32	96	0	117	34	12	15	36	1.86
1037123--1037148	13	2.0	13	100	0	52	30	15	15	38	1.88
1037103--1037169	33	2.0	33	88	0	98	25	14	16	43	1.86
1039539--1039611	27	2.7	27	86	2	92	23	36	21	17	1.94
1039565--1039766	78	2.6	79	80	2	219	23	30	17	28	1.97
1042773--1042813	19	2.2	19	86	8	57	26	0	21	51	1.48
1044824--1044863	15	2.5	16	92	8	64	32	0	30	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044800--1044915	58	2.0	58	96	0	214	37	1	31	29	1.67
1044824--1044915	15	5.1	17	71	27	57	38	1	31	29	1.65
1045462--1045648	97	1.9	97	94	0	329	35	17	16	30	1.92
1045616--1045668	20	2.7	19	88	11	72	37	13	18	30	1.89
1047418--1047472	20	2.8	20	88	0	83	34	12	12	40	1.82
1047438--1047576	51	2.7	49	81	7	161	29	20	10	40	1.85
1049830--1049898	27	2.6	27	97	0	129	23	36	20	20	1.95
1055876--1055920	22	2.0	22	100	0	90	35	17	22	24	1.95
1063065--1063103	20	2.0	19	90	5	60	38	23	7	30	1.83
1063113--1063137	13	1.9	13	100	0	50	32	16	16	36	1.90
1063332--1063480	72	2.1	72	97	0	280	33	10	26	30	1.89
1066511--1066596	32	2.7	32	85	0	118	36	17	11	34	1.86
1068786--1068893	13	8.4	12	75	15	76	82	8	4	4	0.94
1070162--1070540	28	13.4	28	81	7	381	30	30	17	21	1.96
1070162--1070481	57	5.6	56	86	3	408	30	31	17	20	1.96
1070162--1070537	114	3.3	112	84	6	445	30	31	17	21	1.96
1070167--1070537	142	2.6	142	84	3	462	30	31	16	21	1.95
1070618--1070735	49	2.5	47	83	5	141	21	27	19	31	1.97
1070902--1072272	457	3.0	457	97	0	2512	30	18	20	29	1.96
1072348--1072473	20	5.8	20	71	18	90	31	15	10	42	1.81
1072338--1072504	71	2.4	71	92	2	273	29	17	10	42	1.82
1072930--1073025	19	5.7	19	70	26	81	33	12	16	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072950--1073006	13	3.9	13	76	24	60	35	14	17	33	1.90
1072931--1073033	32	3.2	32	95	0	179	33	12	17	36	1.88
1075383--1075504	51	2.3	52	86	5	158	31	22	12	33	1.91
1075383--1075504	53	2.4	51	86	5	156	31	22	12	33	1.91
1075435--1075586	78	1.9	80	89	2	236	30	26	13	29	1.94
1075515--1075690	52	3.4	52	85	3	248	30	26	11	31	1.91
1075378--1075949	183	3.1	180	86	4	745	29	26	12	32	1.92
1075701--1075870	52	3.3	51	77	2	178	30	26	12	31	1.93
1075803--1076086	79	3.6	78	75	11	240	28	26	13	31	1.93
1086991--1087016	13	2.0	13	100	0	52	38	15	15	30	1.88
1086916--1087089	86	2.0	86	97	0	330	35	17	18	28	1.94
1089305--1089349	21	2.1	21	84	8	56	53	4	20	22	1.63
1091151--1091187	15	2.4	16	82	17	51	45	18	21	13	1.84
1093198--1093294	20	4.6	20	79	12	95	25	15	14	44	1.84
1093414--1093459	21	2.2	20	81	11	58	32	19	4	43	1.71
1095602--1095627	13	2.0	13	100	0	52	38	15	15	30	1.88
1097070--1097436	80	4.6	79	77	8	341	33	13	26	26	1.93
1097100--1097436	159	2.1	160	82	4	396	32	14	26	26	1.95
1097393--1097526	52	2.6	52	90	1	205	38	9	24	26	1.86
1099820--1099845	13	2.0	13	100	0	52	38	15	15	30	1.88
1099877--1099926	19	2.6	19	96	0	91	38	18	12	32	1.87
1102027--1102063	3	12.3	3	88	0	56	37	0	32	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102975--1103057	19	4.7	19	77	17	97	31	12	18	38	1.87
1102976--1103038	32	2.0	32	93	0	108	31	12	19	36	1.89
1105493--1105590	51	1.9	51	86	12	139	30	21	11	36	1.88
1105591--1105667	27	2.8	27	88	5	102	23	32	19	24	1.97
1105733--1105900	52	3.3	49	73	10	140	31	27	10	30	1.90
1105620--1105797	80	2.2	80	84	6	220	26	30	15	27	1.96
1105517--1106081	290	2.0	285	87	3	810	27	26	13	32	1.94
1105911--1106117	79	2.6	79	80	1	218	24	28	16	29	1.97
1116698--1116757	10	6.2	10	76	7	61	83	5	11	0	0.80
1116695--1116757	24	2.6	25	80	11	78	82	6	11	0	0.83

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