genome.fa.s322.2.7.7.80.10.50.1000.8.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: Scaffold322
Parameters: 2 7 7 80 10 50 1000
Length:  1390506

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1030 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)
1144440--1144464	13	1.9	13	100	0	50	44	16	8	32	1.76
1144461--1145086	312	2.0	314	86	3	877	35	13	11	40	1.80
1148256--1148349	21	4.7	21	83	7	124	39	12	15	31	1.86
1148256--1148349	40	2.3	40	96	0	170	39	12	15	31	1.86
1152333--1152399	33	2.0	33	88	0	98	34	11	13	40	1.81
1152353--1152377	13	1.9	13	100	0	50	36	16	16	32	1.90
1152455--1152594	51	2.7	52	91	4	230	32	17	17	31	1.94
1160898--1161016	58	2.1	58	91	0	193	22	35	14	27	1.93
1160927--1161330	125	3.2	125	82	8	484	21	35	14	28	1.92
1161023--1161101	27	2.9	27	96	0	140	24	39	17	18	1.92
1160866--1161534	34	20.9	33	75	15	384	20	34	13	31	1.91
1160990--1161322	98	3.5	95	80	12	314	21	36	14	28	1.92
1160895--1161502	97	6.4	96	76	14	352	20	34	13	31	1.91
1161074--1161371	63	4.5	64	79	10	273	20	34	12	32	1.90
1161343--1161464	61	2.0	59	82	7	147	20	32	13	33	1.91
1161371--1161424	27	2.0	27	92	0	90	22	37	14	25	1.93
1161400--1161534	35	3.9	34	81	9	146	18	30	12	38	1.88
1161399--1161541	36	4.1	34	80	7	144	17	32	11	38	1.86
1161405--1161554	71	2.1	70	82	6	178	20	33	12	34	1.89
1161539--1161608	33	2.1	35	94	5	126	25	37	17	20	1.94
1161608--1162272	49	13.8	48	81	7	724	25	25	17	31	1.97
1161608--1162272	97	6.9	97	89	5	913	25	25	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161608--1162272	195	3.4	194	90	4	994	25	25	17	31	1.97
1163209--1163233	13	1.9	13	100	0	50	36	16	16	32	1.90
1163298--1163322	13	1.9	13	100	0	50	32	16	16	36	1.90
1163311--1163450	51	2.7	52	91	4	230	32	17	17	31	1.94
1169762--1169891	52	2.5	51	91	3	199	31	16	19	33	1.94
1169762--1169911	52	2.9	50	83	12	171	32	16	19	32	1.93
1169900--1169924	13	1.9	13	100	0	50	36	16	16	32	1.90
1169965--1170097	33	4.0	33	94	0	221	37	14	11	36	1.82
1169987--1170011	13	1.9	13	100	0	50	32	16	16	36	1.90
1170000--1170098	20	5.7	20	69	30	100	35	15	11	38	1.83
1170053--1170077	13	1.9	13	100	0	50	32	16	16	36	1.90
1170437--1171483	49	21.7	49	81	9	1162	31	17	25	24	1.97
1170428--1171488	92	11.1	92	83	8	1171	31	17	25	24	1.97
1171476--1171650	32	5.5	32	91	4	266	18	17	35	28	1.94
1171633--1172212	34	17.3	35	82	11	611	33	12	34	20	1.89
1171723--1172222	61	7.6	59	78	14	354	33	12	33	20	1.89
1171858--1172221	70	5.5	60	83	10	248	32	12	34	20	1.90
1172192--1172367	31	5.7	30	83	6	183	28	17	28	25	1.98
1171633--1172308	231	2.9	230	82	8	653	33	12	32	20	1.90
1172119--1172370	93	2.6	94	80	6	256	30	15	30	23	1.95
1172192--1172367	62	2.8	62	85	5	207	28	17	28	25	1.98
1173383--1173437	20	2.6	21	86	11	69	0	9	7	83	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173384--1173438	16	3.4	16	82	5	67	0	7	9	83	0.81
1173677--1173735	10	5.7	10	80	13	66	1	0	15	83	0.74
1173679--1173715	18	2.1	18	89	0	56	2	0	13	83	0.74
1173674--1173741	30	2.3	30	87	7	102	1	0	13	85	0.67
1180619--1180748	52	2.5	51	91	3	199	31	16	19	33	1.94
1180619--1180768	52	2.9	50	82	12	162	33	16	18	32	1.93
1180822--1180888	33	2.0	33	88	0	98	40	13	11	34	1.81
1180844--1180868	13	1.9	13	100	0	50	32	16	16	36	1.90
1181280--1181334	19	2.9	19	76	10	60	67	0	32	0	0.91
1182498--1182540	13	3.2	13	77	6	50	67	0	2	30	1.03
1183902--1183956	25	2.1	27	83	12	71	34	1	0	63	1.05
1185126--1185170	18	2.4	19	85	3	56	33	11	2	53	1.49
1186030--1186306	143	2.0	141	85	8	375	39	7	6	46	1.56
1189960--1190023	33	1.9	33	93	0	110	35	18	20	25	1.95
1196886--1196913	2	14.0	2	100	0	56	0	0	50	50	1.00
1197688--1197722	17	2.1	17	88	0	52	45	11	25	17	1.81
1198225--1198387	80	2.0	80	100	0	326	52	17	15	13	1.74
1198257--1198382	38	3.2	38	63	20	96	52	15	17	14	1.75
1202877--1203232	166	2.2	163	86	6	477	31	10	7	50	1.66
1205328--1205380	20	2.7	20	88	11	74	33	15	16	33	1.90
1210961--1211003	23	2.0	23	86	9	63	34	4	20	39	1.74
1211578--1211632	20	2.8	20	94	0	92	32	16	14	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211661--1211715	13	4.1	13	77	9	65	32	18	16	32	1.93
1218297--1218654	156	2.3	154	79	6	364	40	20	15	24	1.90
1220246--1220297	19	2.7	19	84	3	68	28	17	15	38	1.90
1221210--1221283	20	3.7	20	81	3	103	35	13	20	31	1.91
1221228--1221303	21	3.7	21	82	3	109	40	11	18	28	1.86
1221210--1221303	41	2.3	41	100	0	188	38	12	19	29	1.89
1221342--1221367	13	2.0	13	100	0	52	38	15	15	30	1.88
1221823--1221889	36	1.9	35	88	11	102	32	13	25	28	1.93
1224850--1224874	13	1.9	13	100	0	50	36	16	16	32	1.90
1224964--1224988	1	25.0	1	100	0	50	0	0	0	100	0.00
1226367--1226440	20	3.7	20	81	3	103	35	13	20	31	1.91
1226385--1226460	21	3.7	21	82	3	109	40	11	18	28	1.86
1226367--1226460	41	2.3	41	100	0	188	38	12	19	29	1.89
1226499--1226524	13	2.0	13	100	0	52	38	15	15	30	1.88
1226978--1227044	36	1.9	35	88	11	102	32	13	25	28	1.93
1228374--1228407	3	11.3	3	87	0	50	38	0	32	29	1.58
1234681--1234784	20	4.7	20	68	21	73	32	15	10	41	1.81
1237071--1237157	42	2.1	42	95	0	156	33	17	6	42	1.76
1240246--1240376	53	2.5	53	89	1	210	29	16	16	36	1.92
1240385--1240409	13	1.9	13	100	0	50	36	16	16	32	1.90
1240462--1240527	19	3.7	19	73	19	70	37	15	12	34	1.84
1240454--1240525	33	2.2	32	90	4	117	36	16	12	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249920--1249944	13	1.9	13	100	0	50	36	16	16	32	1.90
1249899--1249963	33	2.0	32	87	3	94	30	16	15	36	1.90
1249929--1249986	19	3.1	19	76	16	66	37	17	13	31	1.89
1250035--1250083	13	4.2	13	75	24	63	32	12	18	36	1.88
1250014--1250083	33	2.1	34	89	7	108	32	12	20	34	1.90
1254775--1254958	20	8.7	20	82	11	215	40	11	16	30	1.85
1255562--1255600	21	1.9	21	89	5	62	2	10	5	82	0.93
1259628--1259700	31	2.4	31	95	0	128	42	15	17	24	1.88
1259686--1259740	20	2.8	20	82	0	74	40	12	12	34	1.82
1260705--1261140	28	15.5	28	84	1	494	20	16	31	31	1.95
1261859--1261913	20	2.8	20	86	8	76	34	16	10	38	1.84
1264485--1264520	15	2.5	14	86	8	54	19	0	2	77	0.88
1268175--1268418	82	3.0	83	80	9	268	34	8	22	34	1.85
1268284--1268440	82	1.9	81	82	7	192	34	8	23	33	1.86
1270533--1270641	55	2.0	55	83	0	137	20	19	21	39	1.93
1272428--1272489	33	1.9	33	86	3	90	25	12	20	40	1.89
1272555--1272605	20	2.5	20	90	0	75	35	9	17	37	1.83
1278611--1278666	20	2.8	20	83	2	76	32	16	12	39	1.85
1278647--1278721	32	2.4	32	91	6	118	25	18	12	44	1.84
1278710--1278763	20	2.7	20	82	0	63	31	14	14	38	1.87
1283726--1283815	43	2.1	43	91	0	144	25	25	20	28	1.99
1283769--1283890	52	2.3	55	81	7	153	26	24	13	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283769--1284141	55	6.7	55	71	14	169	25	23	13	36	1.92
1284777--1284874	19	5.7	19	69	27	85	33	13	16	36	1.87
1284779--1284879	32	3.1	32	94	1	175	34	12	16	35	1.87
1284831--1284855	13	1.9	13	100	0	50	36	16	16	32	1.90
1284930--1285075	52	2.8	52	91	4	233	34	19	17	28	1.95
1300484--1300600	34	3.5	33	76	11	121	19	31	12	35	1.90
1300574--1300660	27	3.1	27	82	11	104	24	32	17	26	1.97
1300594--1300701	28	3.8	28	77	7	103	30	31	17	20	1.96
1300964--1301167	53	3.8	52	76	5	151	25	23	15	35	1.94
1301016--1301158	55	2.7	52	75	6	144	25	24	14	35	1.93

Tables:   1   2   3   4   5   6   7   8   9