genome.fa.s475.2.7.7.80.10.50.1000.7.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: Scaffold475
Parameters: 2 7 7 80 10 50 1000
Length:  1773841

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  7  of  12  ( 1353 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)
996218--996354	53	2.6	53	94	1	238	26	17	18	37	1.93
996324--996394	20	3.5	20	77	11	74	29	14	16	39	1.88
1000245--1000270	13	2.0	13	100	0	52	38	15	15	30	1.88
1002496--1002540	21	2.1	21	84	8	56	53	4	20	22	1.63
1004344--1004374	15	2.1	15	93	0	53	48	16	22	12	1.80
1006365--1006443	20	3.7	21	75	15	72	27	13	13	44	1.83
1006430--1006468	13	3.0	13	96	0	69	30	17	15	35	1.91
1008995--1009019	13	1.9	13	100	0	50	36	16	16	32	1.90
1011503--1011541	13	3.0	13	100	0	78	30	15	15	38	1.88
1014860--1014932	28	2.6	27	81	10	85	26	13	12	47	1.78
1018264--1018313	14	3.8	14	74	15	52	0	20	0	80	0.72
1018270--1018314	12	3.7	12	91	5	72	0	22	0	77	0.76
1018673--1019686	332	3.1	325	81	7	1079	51	7	11	29	1.65
1018673--1019686	165	6.1	165	80	7	981	51	7	11	29	1.65
1024379--1024499	52	2.3	52	97	0	224	28	18	18	34	1.94
1024379--1024519	52	2.7	51	90	4	212	30	17	18	33	1.94
1024508--1024532	13	1.9	13	100	0	50	36	16	16	32	1.90
1024598--1024622	13	1.9	13	100	0	50	32	16	16	36	1.90
1024576--1024642	33	2.0	33	88	0	98	40	13	11	34	1.81
1025450--1025607	49	3.1	49	76	7	147	35	15	24	24	1.94
1025379--1025772	170	2.3	171	95	2	700	36	14	24	24	1.93
1025687--1026253	49	11.6	49	84	6	726	32	17	25	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025620--1026253	98	6.4	99	91	5	902	32	17	25	24	1.97
1026253--1026318	33	2.0	34	96	3	125	16	18	37	27	1.92
1026325--1027520	34	35.9	34	81	12	1091	32	13	33	20	1.91
1026676--1026923	61	4.0	61	78	15	179	31	13	35	20	1.91
1027419--1027616	62	3.2	63	86	7	280	28	16	30	24	1.97
1027273--1027613	93	3.6	94	81	10	291	29	15	31	23	1.95
1027438--1027613	31	5.7	31	89	6	259	25	18	30	25	1.98
1028558--1028583	1	26.0	1	100	0	52	0	0	0	100	0.00
1028625--1028660	16	2.2	16	90	0	54	0	8	5	86	0.72
1035182--1035248	33	2.0	33	88	0	98	34	11	13	40	1.81
1035202--1035226	13	1.9	13	100	0	50	36	16	16	32	1.90
1035292--1035316	13	1.9	13	100	0	50	32	16	16	36	1.90
1035325--1035445	52	2.3	52	97	0	224	34	18	18	28	1.94
1043651--1044030	34	11.1	33	84	9	433	19	33	11	35	1.88
1044027--1044124	32	3.1	31	91	5	160	27	37	18	16	1.92
1044032--1044124	33	2.9	32	93	6	161	29	36	19	15	1.92
1044154--1045362	49	24.9	49	86	2	1713	24	26	17	32	1.97
1044152--1045423	98	13.0	98	95	2	2183	24	26	17	32	1.97
1045137--1045318	43	4.1	43	82	8	238	26	24	18	30	1.98
1045088--1045371	92	3.0	92	93	2	469	25	24	17	32	1.97
1045229--1045296	22	3.1	22	62	19	52	26	25	17	30	1.97
1045272--1045409	52	2.6	52	82	5	161	25	24	15	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046208--1046274	33	2.0	33	88	0	98	34	11	13	40	1.81
1046228--1046252	13	1.9	13	100	0	50	36	16	16	32	1.90
1046318--1046342	13	1.9	13	100	0	50	32	16	16	36	1.90
1046351--1046471	52	2.3	52	97	0	224	34	18	18	28	1.94
1050488--1050608	52	2.3	52	97	0	224	28	18	18	34	1.94
1050488--1050628	52	2.7	51	90	4	212	30	17	18	33	1.94
1050617--1050641	13	1.9	13	100	0	50	36	16	16	32	1.90
1050708--1050732	13	1.9	13	100	0	50	32	16	16	36	1.90
1050686--1050752	33	2.0	33	88	0	98	40	13	11	34	1.81
1056097--1056159	32	2.0	32	90	6	103	33	19	20	26	1.96
1056089--1056168	32	2.7	30	83	11	94	31	20	23	25	1.98
1056129--1056528	28	14.1	28	79	6	358	24	16	31	28	1.96
1056148--1056528	57	6.7	56	79	7	333	23	16	31	28	1.96
1056148--1056528	85	4.5	84	77	8	268	23	16	31	28	1.96
1063585--1063629	15	3.0	15	83	0	54	13	2	37	46	1.55
1068370--1068518	52	2.9	52	88	6	230	30	18	18	31	1.95
1068507--1068531	13	1.9	13	100	0	50	36	16	16	32	1.90
1068572--1068638	33	2.0	33	88	0	98	40	14	11	32	1.83
1068594--1068618	13	1.9	13	100	0	50	32	16	16	36	1.90
1076010--1076223	92	2.3	93	81	6	231	37	12	14	35	1.84
1076174--1076243	20	3.5	20	75	14	58	45	12	10	31	1.75
1077401--1077427	13	2.1	13	100	0	54	29	14	14	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077477--1077529	20	2.7	20	82	14	65	37	15	18	28	1.91
1086185--1086214	13	2.3	13	94	0	51	36	16	13	33	1.88
1089001--1089199	79	2.6	78	80	5	208	29	16	28	26	1.96
1089151--1089222	28	2.6	28	88	0	99	23	19	34	22	1.96
1089211--1089380	52	3.3	50	79	11	182	32	12	24	29	1.93
1089354--1089435	27	3.0	28	82	10	98	26	21	29	21	1.99
1091854--1091879	13	2.0	13	100	0	52	38	15	15	30	1.88
1091833--1091899	33	2.0	33	88	0	98	43	16	14	25	1.86
1091919--1091986	19	3.9	18	76	23	83	38	14	11	35	1.83
1091941--1091965	13	1.9	13	100	0	50	32	16	16	36	1.90
1091922--1091984	32	2.0	32	96	0	117	36	15	12	34	1.86
1092042--1092098	21	2.7	21	97	0	105	36	19	10	33	1.86
1092104--1092139	18	2.0	18	100	0	72	11	5	0	83	0.80
1096408--1096842	140	3.1	140	87	2	669	43	10	9	36	1.72
1096855--1096896	16	2.6	17	88	7	61	23	0	0	76	0.79
1097351--1097404	21	2.6	21	96	0	99	37	12	14	35	1.85
1097552--1097596	20	2.2	21	92	4	74	28	22	13	35	1.92
1101561--1101609	5	8.7	6	77	18	52	2	12	0	85	0.68
1101561--1101609	17	3.0	15	88	11	62	2	12	0	85	0.68
1101561--1101611	16	3.1	16	83	13	59	1	13	0	84	0.71
1101563--1101611	11	4.5	11	84	7	55	2	14	0	83	0.73
1104598--1104628	16	1.9	16	93	0	53	22	6	19	51	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105173--1105348	72	2.5	71	79	7	194	35	15	15	34	1.89
1107736--1107780	17	2.7	16	83	10	63	35	0	11	53	1.37
1113181--1113306	52	2.4	52	97	0	243	26	19	19	35	1.95
1113315--1113339	13	1.9	13	100	0	50	36	16	16	32	1.90
1113392--1113475	19	4.7	19	77	16	99	40	15	10	33	1.82
1113411--1113473	32	2.0	32	93	0	108	38	17	11	33	1.85
1114591--1114661	37	1.9	37	85	5	99	25	9	15	49	1.75
1114598--1114917	157	2.0	158	86	3	439	35	11	11	41	1.77
1116114--1116550	218	2.0	218	94	0	759	31	17	16	34	1.92
1117417--1117449	16	2.1	16	100	0	66	30	12	12	45	1.78
1117485--1117543	28	2.1	28	90	0	91	30	16	10	42	1.82
1125594--1125644	13	3.8	13	75	12	50	80	17	1	0	0.81
1125592--1125636	15	2.8	16	86	6	56	77	20	2	0	0.87
1132341--1132458	52	2.3	52	93	0	200	30	16	17	34	1.93
1132341--1132478	52	2.7	52	86	4	181	31	16	18	33	1.93
1132557--1132581	13	1.9	13	100	0	50	32	16	16	36	1.90
1132535--1132601	33	2.0	33	88	0	98	40	13	11	34	1.81
1133288--1133318	16	1.9	16	100	0	62	35	19	12	32	1.90
1133334--1133447	20	5.8	20	89	1	140	41	14	11	33	1.81
1133375--1133428	12	5.2	12	68	32	52	35	18	11	35	1.86
1133335--1133447	60	1.9	59	88	1	172	40	14	11	33	1.81
1134334--1134368	14	2.5	14	90	0	52	34	8	14	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134441--1134501	28	2.2	27	85	2	86	26	26	19	27	1.99
1134680--1134895	32	6.8	31	78	10	204	29	30	18	21	1.97
1134673--1134895	64	3.5	63	80	8	247	29	30	18	21	1.97
1134683--1134895	96	2.2	96	84	1	275	29	30	19	21	1.97
1135529--1135601	20	3.6	20	79	17	96	34	13	19	32	1.91
1135547--1135622	21	3.7	21	76	16	86	40	11	17	30	1.85
1135529--1135622	41	2.3	41	96	0	170	38	12	18	30	1.88
1135661--1135686	13	2.0	13	100	0	52	38	15	15	30	1.88
1141793--1141870	20	3.6	21	74	15	70	26	14	15	43	1.85
1141862--1141896	13	2.7	13	90	0	52	40	20	14	25	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12