genome.fa.s475.2.7.7.80.10.50.1000.8.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: 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  8  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)
1143699--1143844	61	2.4	61	97	2	276	35	6	32	25	1.81
1144411--1144483	20	3.6	20	79	17	96	34	13	19	32	1.91
1144429--1144504	21	3.7	21	76	16	86	40	11	17	30	1.85
1144411--1144504	41	2.3	41	96	0	170	38	12	18	30	1.88
1144543--1144568	13	2.0	13	100	0	52	38	15	15	30	1.88
1149780--1149805	13	2.0	13	100	0	52	38	15	15	30	1.88
1149762--1149825	32	2.0	33	90	3	103	45	15	10	28	1.80
1150817--1150987	79	2.2	80	85	1	236	31	16	25	25	1.97
1150817--1151033	79	2.7	78	77	9	222	33	15	24	27	1.95
1150890--1151163	130	2.1	130	85	4	374	34	13	23	28	1.93
1150966--1151084	51	2.3	51	78	2	132	34	12	23	29	1.92
1153486--1153540	20	2.8	20	91	0	92	47	12	12	27	1.78
1154152--1154506	42	8.2	42	76	10	245	42	12	26	18	1.86
1154189--1154308	41	2.9	41	81	2	114	45	13	20	21	1.85
1154148--1154308	83	1.9	83	80	5	182	41	13	23	21	1.88
1154276--1154486	46	4.7	47	80	12	214	41	12	26	19	1.87
1154389--1154528	45	3.4	40	74	12	133	38	15	26	20	1.91
1154343--1154533	85	2.3	84	85	7	253	39	14	26	19	1.90
1154497--1154995	62	8.1	62	81	4	540	31	18	25	24	1.98
1154497--1154995	186	2.7	184	84	2	640	31	18	25	24	1.98
1154945--1155467	94	5.6	94	88	1	719	26	17	29	27	1.98
1156450--1156490	11	3.5	12	84	12	50	0	7	7	85	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168764--1168947	79	2.3	78	82	4	201	36	11	23	27	1.90
1168882--1168997	51	2.3	51	84	0	151	34	8	25	31	1.86
1168844--1169077	130	1.8	130	88	3	337	35	11	23	29	1.90
1172377--1172446	20	3.6	19	94	3	115	44	11	15	28	1.81
1173753--1173875	62	2.0	62	91	0	201	48	12	14	24	1.78
1173755--1173911	62	2.5	62	85	3	172	46	14	15	23	1.82
1174036--1174672	54	12.4	53	78	13	586	39	2	4	54	1.32
1174033--1174672	107	6.2	105	78	13	599	39	2	4	54	1.32
1174107--1174672	150	3.7	147	76	10	450	40	2	4	53	1.32
1174381--1174478	43	2.3	43	91	1	153	37	4	6	52	1.46
1174475--1174570	42	2.3	43	85	7	133	39	0	3	57	1.15
1174494--1174575	42	2.0	43	95	4	150	40	0	2	57	1.12
1174535--1174673	57	2.5	53	84	11	183	43	1	1	53	1.18
1174357--1174645	93	3.1	90	74	17	241	40	2	3	53	1.29
1174424--1174690	144	1.9	138	80	14	308	42	1	2	53	1.24
1174689--1174716	14	2.0	14	100	0	56	50	0	0	50	1.00
1178151--1178248	49	2.0	49	97	0	187	23	16	15	44	1.85
1183062--1183600	158	3.5	154	81	6	529	38	18	15	26	1.91
1184028--1184079	20	2.5	20	87	3	77	40	9	15	34	1.80
1184222--1184545	161	2.0	161	96	0	603	35	17	11	35	1.85
1186451--1186636	79	2.4	78	84	2	221	31	17	28	22	1.96
1186588--1186659	28	2.6	28	88	0	99	25	19	33	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186509--1186822	107	2.9	107	85	3	319	28	16	28	26	1.97
1186573--1186822	108	2.3	109	90	2	378	27	15	29	27	1.96
1186700--1186770	27	2.6	27	88	2	97	22	21	32	23	1.98
1186755--1186885	51	2.5	51	82	9	165	32	11	25	30	1.91
1189213--1189279	33	2.0	33	85	0	89	43	16	14	25	1.86
1189299--1189366	19	3.9	18	75	23	74	38	13	11	36	1.81
1189321--1189345	13	1.9	13	100	0	50	32	16	16	36	1.90
1189302--1189364	32	2.0	32	93	0	108	36	14	12	36	1.84
1189422--1189499	21	3.7	21	98	0	147	37	20	10	32	1.86
1190247--1190827	55	10.3	55	87	8	705	23	20	28	27	1.99
1191810--1191851	11	3.6	11	87	9	57	0	2	9	88	0.61
1191810--1191869	9	6.7	9	75	7	59	0	3	11	85	0.72
1191810--1191868	28	2.1	28	84	6	75	0	3	10	86	0.68
1191810--1191868	19	3.2	18	81	11	66	0	3	10	86	0.68
1199795--1199847	28	2.0	26	85	7	70	26	33	13	26	1.93
1199754--1199970	78	2.7	79	79	7	219	27	28	9	34	1.88
1201562--1201608	21	2.4	19	85	7	58	70	14	2	12	1.26
1202160--1202191	11	2.9	11	90	0	55	71	0	0	28	0.86
1202144--1202186	16	2.7	15	79	10	50	67	4	0	27	1.10
1202591--1202630	21	2.0	20	85	5	53	60	2	10	27	1.42
1203520--1203741	75	2.9	75	78	12	222	34	18	15	31	1.92
1203699--1203769	37	2.0	35	81	10	83	35	15	14	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207597--1207621	2	12.5	2	100	0	50	52	0	0	48	1.00
1209515--1210464	165	5.8	166	87	4	1305	28	11	7	51	1.66
1209515--1210464	329	2.9	329	86	4	1299	28	11	7	51	1.66
1212466--1212687	110	2.0	110	100	0	444	22	12	22	42	1.87
1212785--1212852	20	3.8	20	70	25	78	33	19	11	35	1.88
1212782--1212865	33	2.5	33	98	0	159	35	20	11	32	1.89
1212809--1212866	13	4.9	13	70	23	56	36	20	13	29	1.91
1212782--1212884	33	3.1	32	91	5	145	34	21	13	30	1.92
1212913--1212966	19	2.8	20	88	2	74	38	14	16	29	1.89
1215466--1215502	13	2.8	13	87	0	56	35	18	13	32	1.90
1221661--1221690	13	2.3	13	94	0	51	36	10	16	36	1.82
1222759--1223406	155	4.2	153	84	3	757	24	15	20	40	1.90
1222759--1223406	309	2.1	310	84	4	826	24	15	20	40	1.90
1227357--1227396	20	2.0	20	100	0	80	40	15	10	35	1.80
1227451--1227475	13	1.9	13	100	0	50	32	16	16	36	1.90
1227431--1227495	33	2.0	33	88	11	98	32	18	15	33	1.92
1227685--1227738	22	2.5	22	79	8	58	38	9	11	40	1.73
1228140--1228182	20	2.2	20	91	0	68	37	23	2	37	1.68
1236219--1236291	20	3.7	19	87	7	85	38	16	16	28	1.90
1236840--1236883	22	2.0	21	91	4	70	77	0	15	6	0.97
1238641--1238693	19	2.7	20	85	8	72	28	13	15	43	1.84
1249052--1249182	52	2.5	52	88	0	199	29	16	18	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249060--1249202	52	2.8	52	86	2	171	30	17	18	33	1.94
1249191--1249215	13	1.9	13	100	0	50	36	16	16	32	1.90
1249260--1249343	13	5.5	13	71	28	60	35	16	13	34	1.88
1249260--1249362	32	3.2	31	89	10	163	35	16	13	33	1.88
1249268--1249365	19	5.9	17	69	27	77	36	15	13	34	1.86
1250524--1250688	84	2.0	84	92	0	276	32	12	22	32	1.91
1251715--1251767	23	2.3	23	90	0	79	24	3	37	33	1.74
1256312--1256494	76	2.4	75	78	4	197	32	18	16	32	1.93
1259650--1259704	20	2.7	21	82	2	67	38	16	18	27	1.92
1260899--1260954	20	2.8	19	89	5	76	39	14	16	30	1.88
1261024--1261049	13	2.0	13	100	0	52	38	15	15	30	1.88
1261006--1261069	32	2.0	33	87	3	94	40	17	14	28	1.88
1261054--1261153	41	2.4	42	93	3	168	32	14	16	38	1.88
1263860--1263927	19	3.9	19	78	21	85	35	11	14	38	1.83
1263862--1263924	32	2.0	32	96	0	117	34	12	15	36	1.86
1263881--1263905	13	1.9	13	100	0	50	36	16	16	32	1.90
1263967--1263993	13	2.1	13	100	0	54	29	14	14	40	1.86
1266442--1266510	27	2.5	27	84	13	88	26	31	20	21	1.98
1266387--1266780	107	3.7	105	73	11	334	27	27	14	30	1.95
1266497--1266666	52	3.3	51	76	11	175	29	25	12	32	1.93
1266329--1266665	104	3.2	103	71	13	299	30	25	12	31	1.92
1266650--1266726	28	2.8	28	87	0	100	23	33	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266327--1266733	212	1.9	212	88	3	622	28	27	13	30	1.94
1269395--1269425	15	2.1	15	93	0	53	48	16	22	12	1.80
1271508--1271545	13	2.9	13	96	0	67	34	18	15	31	1.92
1273992--1274046	20	2.7	21	85	2	76	38	12	18	30	1.88
1279106--1279220	51	2.4	50	82	10	132	28	16	10	44	1.81
1284798--1284823	13	2.0	13	100	0	52	38	15	15	30	1.88
1284780--1284843	32	2.0	33	90	3	103	39	18	14	28	1.90
1287038--1287087	21	2.3	21	80	10	57	56	4	18	22	1.58
1291114--1291139	13	2.0	13	100	0	52	38	15	15	30	1.88
1295030--1295086	6	9.5	6	96	0	105	50	0	15	33	1.44

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