genome.fa.s56.2.7.7.80.10.50.1000.7.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: Scaffold56
Parameters: 2 7 7 80 10 50 1000
Length:  1793205

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

This is table  7  of  11  ( 1274 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)
1086562--1087006	237	1.9	238	87	4	657	33	11	26	28	1.92
1089345--1089401	21	2.8	21	91	2	89	45	12	17	24	1.83
1089425--1089476	13	3.5	13	73	26	50	36	17	13	32	1.89
1089433--1089495	19	3.7	18	74	24	64	34	17	12	34	1.88
1089425--1089497	32	2.3	32	95	0	128	34	17	12	35	1.88
1089802--1089940	63	2.2	63	94	0	242	28	17	18	35	1.93
1096662--1096689	2	14.0	2	100	0	56	50	0	0	50	1.00
1098392--1098442	25	2.0	26	85	11	70	29	7	1	60	1.36
1101142--1101185	22	2.0	22	83	12	56	54	2	0	43	1.12
1101153--1101200	25	1.9	25	87	8	71	50	2	0	47	1.12
1106160--1106196	14	2.8	13	84	8	56	89	0	10	0	0.49
1106119--1106192	36	2.0	38	82	12	91	77	5	12	5	1.11
1106144--1106197	25	2.1	26	86	10	76	81	1	12	3	0.91
1106945--1107237	58	5.1	57	74	11	202	26	10	12	50	1.73
1106911--1107179	29	9.3	28	66	19	99	26	8	14	49	1.72
1106915--1107229	116	2.7	115	80	10	295	26	9	13	49	1.73
1107033--1107250	115	1.9	116	80	10	261	26	9	13	50	1.72
1108615--1108718	33	3.0	34	79	11	104	56	0	1	40	1.17
1108679--1108719	20	2.0	20	85	9	55	56	2	0	41	1.13
1109827--1109891	28	2.3	28	84	10	80	1	24	1	72	1.02
1109824--1109891	17	3.9	19	70	26	53	2	23	1	72	1.07
1110717--1110747	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112272--1112304	2	17.0	2	93	6	59	51	0	0	48	1.00
1112304--1112342	2	19.5	2	100	0	78	51	0	48	0	1.00
1113600--1113657	2	29.0	2	92	0	98	48	1	50	0	1.11
1113779--1113817	20	2.0	20	84	0	51	38	7	15	38	1.76
1114980--1115027	24	2.0	25	83	4	62	54	16	6	22	1.65
1115395--1115435	17	2.4	18	84	8	59	48	0	0	51	1.00
1115395--1115435	9	4.8	9	85	8	59	48	0	0	51	1.00
1122152--1122189	13	2.9	13	88	0	58	28	13	15	42	1.85
1126547--1126674	45	2.9	44	88	3	177	24	0	19	55	1.48
1126830--1126865	18	2.0	18	94	0	63	41	5	0	52	1.24
1127562--1127611	6	8.8	6	74	12	52	16	0	2	82	0.77
1127543--1127684	48	3.1	44	68	17	112	21	0	7	69	1.18
1127667--1127707	13	3.2	13	83	13	50	26	0	2	70	0.99
1129055--1129097	16	2.7	16	79	13	52	44	30	6	18	1.76
1135879--1135946	19	3.9	18	76	23	83	36	16	11	35	1.85
1135901--1135925	13	1.9	13	100	0	50	32	16	16	36	1.90
1135882--1135944	32	2.0	32	96	0	117	34	17	12	34	1.88
1136847--1136872	11	2.4	11	100	0	52	30	15	15	38	1.88
1136996--1137035	19	2.1	19	85	0	53	20	25	5	50	1.68
1138837--1138866	11	2.7	11	94	0	51	60	0	6	33	1.23
1140295--1140430	68	2.0	68	95	0	245	38	6	16	38	1.74
1144302--1144347	21	2.1	22	96	4	85	54	8	8	28	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145337--1145383	17	2.6	19	77	19	55	70	10	0	19	1.16
1147051--1147921	42	20.5	42	70	10	166	35	16	28	18	1.93
1147005--1147196	84	2.3	85	84	0	251	35	18	27	18	1.94
1147051--1147918	128	6.8	127	72	9	371	35	16	28	19	1.93
1147165--1147914	85	8.8	84	77	7	570	35	16	28	19	1.94
1147164--1147918	170	4.4	170	78	6	708	35	16	27	19	1.94
1162318--1162414	33	2.9	33	86	3	133	37	16	12	34	1.86
1164477--1164516	21	1.9	21	84	0	53	57	2	20	20	1.52
1166918--1166952	15	2.3	15	100	0	70	31	31	0	37	1.58
1168393--1168430	20	1.9	20	94	0	67	44	15	10	28	1.80
1168465--1168492	13	2.2	13	100	0	56	28	14	14	42	1.84
1168444--1168507	32	2.0	32	84	3	83	37	12	12	37	1.81
1171024--1171071	16	2.7	18	81	18	64	33	18	14	33	1.91
1171132--1171197	21	3.2	21	73	12	66	33	7	16	42	1.77
1173868--1174599	15	50.3	15	71	6	254	34	22	18	25	1.96
1173986--1174508	15	36.1	14	74	7	267	35	22	17	25	1.95
1174227--1174597	116	3.2	116	86	1	476	32	21	19	26	1.98
1173848--1174602	29	25.9	29	72	6	283	33	21	18	25	1.96
1174068--1174496	58	7.4	58	83	1	473	35	21	17	25	1.95
1174080--1174589	58	8.8	58	81	2	432	33	21	18	26	1.96
1175981--1176038	29	2.0	30	83	6	75	18	3	10	67	1.35
1176224--1176277	27	2.0	27	100	0	108	25	14	7	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176388--1176448	31	1.9	31	83	9	79	55	4	1	37	1.31
1178514--1178611	51	1.9	51	100	0	196	34	20	6	38	1.77
1179937--1179970	7	4.7	7	92	7	59	17	0	0	82	0.67
1179937--1179970	15	2.4	14	95	5	59	17	0	0	82	0.67
1180211--1180668	114	4.2	112	77	9	437	34	15	15	34	1.89
1180267--1180672	213	1.9	216	84	5	543	33	16	16	33	1.91
1181250--1181315	22	3.0	22	86	2	89	0	25	1	72	0.93
1181252--1181314	18	3.5	18	78	8	65	0	23	1	74	0.90
1181266--1181314	25	2.0	25	87	0	71	0	26	0	73	0.83
1181250--1181307	4	15.8	4	81	13	54	0	22	1	75	0.89
1182085--1182153	4	18.8	4	78	11	60	0	23	0	76	0.78
1182085--1182155	29	2.4	29	86	6	90	0	23	0	76	0.79
1182103--1182167	21	3.0	21	78	14	71	0	24	0	75	0.81
1184260--1184290	15	2.1	15	93	0	53	45	0	25	29	1.54
1190760--1190807	19	2.5	19	100	0	96	27	6	16	50	1.69
1190854--1190886	13	2.5	13	90	0	57	36	15	15	33	1.88
1190841--1190905	33	2.0	33	87	0	94	38	13	13	33	1.85
1192301--1192390	45	2.0	45	93	0	153	42	12	15	30	1.83
1193250--1193304	20	2.8	20	80	5	58	30	16	10	41	1.83
1194956--1194984	10	2.7	11	94	5	51	34	10	0	55	1.34
1195490--1195717	96	2.4	98	81	5	275	27	29	11	31	1.92
1200484--1200526	17	2.7	15	82	10	50	69	9	16	4	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201880--1202013	27	4.9	27	89	2	196	24	26	14	35	1.93
1201880--1202013	55	2.5	55	91	1	207	24	26	14	35	1.93
1202019--1202898	58	14.8	57	78	11	618	31	29	17	21	1.96
1201902--1202898	32	33.7	28	81	8	694	30	29	17	22	1.97
1203046--1203139	49	2.0	47	87	4	134	24	25	13	36	1.93
1206059--1206304	97	2.6	96	88	1	350	28	28	13	29	1.95
1206059--1206304	96	2.5	97	86	1	361	28	28	13	29	1.95
1207784--1207835	19	2.7	20	93	3	88	46	11	13	28	1.78
1207784--1207897	20	5.7	20	83	7	99	36	13	14	35	1.86
1220969--1221008	21	1.9	21	100	0	80	25	35	5	35	1.78
1227339--1227384	21	2.2	21	84	7	58	58	0	0	41	0.98
1227354--1227392	21	1.9	21	89	5	62	51	0	0	48	1.00
1227361--1227412	26	2.0	27	88	7	81	53	0	0	46	1.00
1228322--1228361	2	20.0	2	100	0	80	50	0	0	50	1.00
1228576--1228614	19	2.1	19	85	0	51	35	2	0	61	1.10
1230333--1230359	13	2.1	13	100	0	54	29	14	14	40	1.86
1230314--1230375	33	1.9	32	87	9	90	27	14	16	41	1.87
1230343--1230399	19	2.9	19	86	2	78	31	12	17	38	1.87
1236760--1236800	21	1.9	22	85	5	57	26	19	0	53	1.45
1242961--1242986	13	2.0	13	100	0	52	38	15	15	30	1.88
1252516--1252580	32	2.0	32	87	0	94	36	7	18	36	1.80
1254751--1254787	2	18.5	2	100	0	74	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256400--1256518	51	2.3	51	82	2	141	29	10	28	31	1.90
1256453--1256627	79	2.2	79	83	2	217	32	14	25	27	1.95
1256587--1256649	28	2.2	28	86	13	94	31	17	26	23	1.97
1256601--1256655	28	2.0	28	96	0	101	32	12	29	25	1.93
1256637--1256755	51	2.3	50	77	8	114	32	9	25	32	1.87
1256392--1256833	237	1.9	237	81	5	554	34	12	24	28	1.91
1259130--1259253	49	2.5	50	89	1	178	41	15	17	25	1.89
1259789--1261055	61	21.4	61	83	6	1272	28	19	25	26	1.99
1260188--1260327	28	5.1	28	61	19	69	24	20	26	28	1.99
1260167--1260247	27	3.0	27	67	15	67	24	20	27	27	1.99

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