genome.fa.s94.2.7.7.80.10.50.1000.7.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: Scaffold94
Parameters: 2 7 7 80 10 50 1000
Length:  2274668

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

This is table  7  of  13  ( 1461 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)
1054724--1054750	14	1.9	14	100	0	54	37	44	3	14	1.63
1054766--1054802	2	18.5	2	94	0	65	45	2	0	51	1.15
1059403--1059431	12	2.4	12	100	0	58	41	0	6	51	1.28
1062906--1063001	48	2.0	48	91	0	156	35	10	21	32	1.88
1066667--1066723	30	1.9	29	82	10	71	29	5	7	57	1.47
1071699--1071741	2	21.5	2	95	0	77	53	0	46	0	1.00
1072843--1073046	58	3.6	57	80	9	202	32	9	9	48	1.68
1073085--1073363	76	3.7	75	72	12	194	34	11	17	36	1.85
1085119--1085164	18	2.5	19	76	23	53	39	0	4	56	1.19
1085421--1085481	28	2.2	28	85	5	79	44	6	0	49	1.28
1089390--1089428	19	2.0	20	90	5	62	43	5	5	46	1.48
1089926--1090001	17	4.4	17	69	12	64	50	2	1	46	1.24
1090824--1090854	16	1.9	16	93	0	53	9	16	9	64	1.48
1092434--1092486	22	2.4	22	93	0	88	43	11	11	33	1.76
1095116--1095157	17	2.4	18	80	11	52	40	14	2	42	1.58
1099106--1099138	17	1.9	17	88	11	50	24	9	15	51	1.72
1099662--1099740	33	2.4	32	75	10	79	32	3	12	50	1.58
1100025--1100073	2	24.5	2	100	0	98	48	0	0	51	1.00
1105059--1105102	16	2.8	16	78	0	52	59	2	2	36	1.23
1108157--1108212	21	2.8	21	81	5	62	30	16	16	37	1.90
1108127--1108189	32	1.9	33	90	3	101	28	17	14	39	1.89
1116327--1116360	15	2.1	17	89	10	54	35	0	35	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116898--1116958	13	5.1	13	77	18	78	31	13	16	39	1.87
1116898--1116979	34	2.4	34	100	0	164	31	12	17	39	1.86
1117025--1117055	13	2.4	13	94	0	53	35	16	12	35	1.87
1116899--1117056	34	4.8	33	71	18	100	32	15	16	34	1.91
1118852--1118969	52	2.3	52	90	0	191	36	9	20	33	1.85
1119181--1119213	14	2.4	14	90	5	50	24	0	0	75	0.80
1122174--1122248	32	2.3	32	95	0	132	28	13	26	32	1.94
1122174--1122279	32	3.3	32	85	5	99	25	15	27	32	1.95
1124397--1124504	53	2.0	53	100	0	216	26	25	20	27	1.99
1130855--1130936	41	2.0	42	90	7	132	17	10	14	57	1.65
1139836--1139861	11	2.4	11	100	0	52	92	0	7	0	0.39
1152427--1152461	3	11.7	3	100	0	70	31	0	0	68	0.90
1152791--1152939	16	8.9	17	73	17	68	68	3	0	27	1.10
1152849--1152939	46	2.0	47	85	10	125	71	1	0	27	0.93
1152821--1152923	55	1.9	53	84	7	136	70	1	0	27	0.97
1152812--1152939	55	2.4	52	78	10	132	69	2	0	28	1.01
1152839--1152940	8	12.6	8	74	18	79	71	1	0	26	0.96
1153005--1153047	21	2.0	22	90	4	70	62	0	0	37	0.95
1152998--1153047	21	2.5	21	83	6	68	64	0	0	36	0.94
1153655--1153697	16	2.6	16	85	10	52	27	2	0	69	1.00
1153789--1153841	21	2.5	20	75	19	54	32	1	3	62	1.24
1153991--1154026	2	18.0	2	94	0	63	47	2	0	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155041--1155106	9	7.2	9	71	25	50	72	3	0	24	0.98
1155069--1155105	15	2.5	15	90	0	56	75	5	0	18	0.99
1156234--1156277	11	3.6	12	77	17	54	20	0	9	70	1.14
1156426--1156478	11	5.2	10	75	20	56	71	1	0	26	0.96
1156433--1156484	26	2.0	27	81	11	63	71	3	1	23	1.13
1156591--1156620	2	15.0	2	100	0	60	50	0	0	50	1.00
1156556--1156784	125	1.8	128	90	3	374	44	7	15	31	1.75
1158015--1158061	15	3.1	15	76	11	60	21	2	12	63	1.39
1159228--1159274	20	2.5	19	80	13	53	29	14	8	46	1.74
1160799--1160875	2	38.5	2	84	5	102	46	1	5	46	1.33
1162286--1162357	20	3.6	20	75	5	74	36	13	9	40	1.78
1163268--1163309	21	2.0	20	90	4	66	21	11	7	59	1.56
1163271--1163314	21	2.2	21	84	8	56	20	11	11	56	1.64
1176350--1176400	5	10.0	5	83	12	68	84	15	0	0	0.63
1176351--1176425	11	6.6	11	77	8	71	82	13	2	1	0.84
1176352--1176403	16	3.5	15	87	7	79	86	13	0	0	0.57
1176351--1176425	19	3.8	19	80	16	73	82	13	2	1	0.84
1177635--1178470	28	29.6	28	86	3	966	27	30	18	23	1.97
1178624--1178731	49	2.3	46	80	10	112	20	28	20	30	1.97
1186761--1186833	20	3.6	20	81	1	83	45	8	15	31	1.75
1190330--1190382	2	26.5	2	88	0	79	52	0	1	45	1.11
1191195--1191247	14	3.8	15	75	25	53	54	0	1	43	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1191671--1191801	10	12.6	10	70	23	51	41	2	0	56	1.12
1191689--1191799	20	5.6	20	68	22	65	41	0	0	57	1.05
1191689--1191794	7	15.7	7	66	24	50	42	0	0	56	1.05
1191681--1191794	45	2.4	49	81	11	148	42	1	0	56	1.10
1191745--1191799	12	4.7	12	84	11	69	38	0	0	61	0.96
1191745--1191799	22	2.3	24	81	12	69	38	0	0	61	0.96
1191689--1191794	29	3.4	30	75	16	83	42	0	0	56	1.05
1191755--1191804	11	4.7	10	80	11	55	34	0	0	66	0.92
1194187--1194217	15	2.1	15	100	0	62	54	19	19	6	1.65
1194235--1194295	28	2.2	28	80	8	72	37	1	1	59	1.17
1194290--1194398	14	7.4	14	70	16	53	38	0	2	57	1.19
1194752--1194850	47	2.1	48	84	5	130	40	2	4	53	1.31
1195823--1195911	37	2.4	35	80	14	99	51	1	1	46	1.15
1195852--1195917	12	5.3	12	74	16	55	51	0	0	48	1.00
1195874--1195926	14	4.0	13	76	11	54	56	0	1	41	1.10
1199474--1199664	79	2.4	78	85	2	231	30	17	27	23	1.97
1199616--1199687	28	2.6	28	88	0	99	25	19	33	22	1.97
1199673--1200070	52	7.6	52	69	12	215	32	11	25	30	1.91
1199672--1199896	52	4.4	51	79	5	227	33	12	24	29	1.92
1199568--1200065	263	1.9	262	86	3	714	32	12	25	29	1.93
1202414--1202439	13	2.0	13	100	0	52	38	15	15	30	1.88
1202393--1202459	33	2.0	33	88	0	98	43	16	14	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202426--1202479	20	2.7	20	100	0	108	48	14	14	22	1.81
1203129--1204352	55	21.5	55	87	6	1328	24	20	27	26	1.99
1203118--1204352	171	7.2	166	83	8	1390	25	20	28	26	1.99
1203129--1204359	226	5.4	225	86	7	1518	25	20	27	26	1.99
1203469--1203605	26	4.9	29	65	22	96	19	21	30	28	1.97
1205367--1205427	1	61.0	1	75	0	50	0	6	6	86	0.69
1205367--1205428	8	7.8	8	81	13	58	0	6	8	85	0.74
1205367--1205425	13	4.8	12	80	14	66	0	6	6	86	0.71
1205351--1205425	37	2.0	39	84	10	102	0	10	5	84	0.78
1205350--1205426	14	5.5	13	76	17	75	0	10	5	84	0.77
1205847--1206230	190	2.0	190	99	0	759	26	25	18	30	1.98
1248042--1248080	2	19.5	2	100	0	78	51	48	0	0	1.00
1251226--1251281	23	2.5	23	85	2	78	53	3	8	33	1.49
1253253--1253284	2	16.0	2	100	0	64	50	0	0	50	1.00
1284910--1284948	21	1.9	21	84	5	53	33	7	2	56	1.41
1288718--1288759	3	14.0	3	89	0	66	28	0	4	66	1.12
1288860--1288899	21	1.9	21	84	0	53	42	2	5	50	1.37
1289951--1289990	17	2.4	17	83	12	55	0	17	12	70	1.18
1294990--1295014	13	1.9	13	100	0	50	32	16	16	36	1.90
1297849--1298166	129	2.4	131	81	4	383	34	14	24	27	1.94
1298028--1298226	79	2.5	78	82	2	229	35	13	23	27	1.92
1298181--1298623	51	8.6	50	69	13	234	33	11	25	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298382--1298458	28	2.8	28	85	0	91	22	19	35	23	1.96
1298152--1298622	261	1.8	261	90	0	762	32	12	26	28	1.92
1298531--1298634	51	2.0	51	87	5	147	40	10	22	26	1.86
1300974--1301060	40	2.2	40	97	0	165	39	10	28	21	1.86
1301206--1301874	55	11.4	60	83	8	705	26	20	27	25	1.99
1301206--1301871	178	3.8	177	84	7	824	26	20	27	25	1.99
1301723--1301810	27	3.3	26	65	14	70	23	21	29	25	1.99
1302853--1302905	10	5.4	10	86	10	74	1	1	5	90	0.58
1302842--1302906	1	65.0	1	79	0	67	1	3	6	89	0.64
1302842--1302906	11	5.9	11	84	10	80	1	3	6	89	0.64

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