genome.fa.s138.2.7.7.80.10.50.1000.8.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: Scaffold138
Parameters: 2 7 7 80 10 50 1000
Length:  1735418

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

This is table  8  of  11  ( 1296 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)
1123916--1123977	29	2.1	31	90	6	101	61	0	0	38	0.96
1124051--1124093	2	21.5	2	100	0	86	51	0	0	48	1.00
1124110--1124549	227	1.9	228	86	3	620	49	6	3	40	1.47
1129362--1129430	22	3.2	22	62	25	56	28	15	30	24	1.96
1129209--1129749	43	12.1	43	76	12	450	29	17	26	26	1.98
1129209--1129691	134	3.6	130	87	4	653	28	17	26	27	1.98
1129209--1129749	91	6.1	87	78	11	406	29	17	26	26	1.98
1129524--1129599	39	1.9	39	86	0	107	27	17	22	32	1.96
1129569--1129743	49	3.7	48	77	9	189	29	15	26	28	1.96
1129807--1130061	32	7.9	32	79	9	223	37	12	30	20	1.89
1129740--1130118	34	11.8	32	74	11	276	36	12	30	20	1.89
1129826--1130118	61	4.6	65	75	12	270	36	12	30	20	1.89
1129796--1130119	95	3.4	94	81	5	321	37	12	29	20	1.89
1130092--1130499	30	13.1	30	82	6	411	31	14	29	23	1.95
1130092--1130503	63	6.6	61	84	5	468	32	14	29	23	1.94
1130077--1130463	189	2.0	190	85	5	516	32	14	29	22	1.94
1135264--1135299	13	2.6	14	95	4	65	83	0	0	16	0.65
1135323--1135451	26	5.0	26	94	0	222	51	6	28	12	1.65
1135803--1135827	9	2.8	9	100	0	50	36	44	12	8	1.71
1135812--1135898	43	2.0	43	93	0	147	32	39	20	8	1.82
1135821--1135922	43	2.4	43	79	0	105	31	38	22	7	1.83
1136848--1137284	51	8.5	51	73	11	336	29	26	12	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136946--1137002	28	2.0	29	89	3	89	24	29	15	29	1.96
1136848--1137284	104	4.2	102	71	12	336	29	26	12	32	1.92
1137216--1137434	79	2.8	79	92	0	375	27	24	15	32	1.95
1141824--1141878	28	1.9	29	92	3	94	18	29	21	30	1.97
1141852--1141970	53	2.3	52	83	7	138	24	25	15	34	1.95
1141754--1141917	76	2.1	80	88	5	248	25	28	15	30	1.96
1151857--1152073	95	2.3	96	90	2	348	25	30	17	25	1.98
1151994--1152526	55	9.4	55	84	7	647	26	26	21	25	1.99
1152110--1152197	26	3.3	26	65	14	70	26	30	20	22	1.98
1151997--1152526	172	3.1	165	88	6	765	26	26	21	25	1.99
1151994--1152526	227	2.3	227	90	1	829	26	26	21	25	1.99
1153159--1153185	6	4.5	6	100	0	54	55	14	0	29	1.40
1153220--1153252	4	8.0	4	93	6	57	75	0	0	24	0.80
1153220--1153257	13	2.9	13	92	7	60	76	0	0	23	0.79
1153217--1153260	17	2.6	16	86	13	61	77	0	0	22	0.77
1153282--1153435	26	6.0	26	96	0	283	51	7	28	11	1.66
1153800--1153885	43	2.0	43	93	0	145	31	34	22	11	1.90
1154833--1155269	51	8.5	51	73	10	343	29	26	12	32	1.92
1154833--1155269	104	4.2	102	70	11	298	29	26	12	32	1.92
1155204--1155427	79	2.8	79	94	0	394	28	26	13	32	1.94
1155359--1155506	53	2.9	50	80	10	172	27	23	12	36	1.91
1161006--1161071	33	2.0	33	85	5	89	42	13	13	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167720--1167750	15	2.1	15	93	0	53	45	0	3	51	1.17
1168251--1168377	22	5.9	22	72	10	100	51	6	3	38	1.46
1168254--1168377	43	2.9	43	78	8	128	51	6	3	38	1.44
1168257--1168377	11	11.2	11	65	16	56	50	6	3	39	1.45
1171286--1171323	20	1.9	20	88	0	58	36	7	18	36	1.80
1171293--1171340	20	2.4	20	82	0	60	41	10	14	33	1.80
1172913--1172955	3	14.3	3	85	0	59	39	2	30	27	1.69
1173488--1173525	20	1.9	20	100	0	76	36	13	10	39	1.79
1173512--1173536	13	1.9	13	100	0	50	36	16	8	40	1.77
1173492--1173555	33	1.9	33	87	6	94	32	15	10	40	1.82
1180541--1180592	1	52.0	1	76	0	50	88	11	0	0	0.52
1180533--1180584	16	3.1	17	88	8	79	82	17	0	0	0.66
1180533--1180592	11	5.5	11	78	7	61	85	15	0	0	0.61
1180544--1180589	12	3.9	11	88	11	65	86	13	0	0	0.56
1180541--1180592	16	3.3	15	84	12	61	88	11	0	0	0.52
1180542--1180592	23	2.3	23	87	9	63	88	11	0	0	0.52
1181656--1181693	8	4.6	8	90	6	58	44	23	5	26	1.74
1181791--1181920	31	4.2	31	81	7	140	22	28	12	36	1.90
1181790--1181920	62	2.1	63	81	9	162	22	29	12	36	1.90
1181886--1182416	27	16.8	34	82	10	398	20	31	12	35	1.90
1181893--1182416	61	8.3	67	84	7	410	20	31	12	34	1.91
1182121--1182382	88	3.0	89	85	8	292	21	33	14	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182062--1182448	115	3.2	116	79	15	382	21	32	14	31	1.93
1182396--1182549	30	5.3	30	82	5	156	32	31	16	18	1.94
1182576--1184753	49	46.8	49	73	13	1518	25	25	18	30	1.98
1182919--1183352	87	5.0	87	88	2	584	26	25	18	29	1.98
1183063--1183298	39	5.6	39	73	16	148	27	26	19	27	1.99
1183476--1183796	39	7.6	38	71	18	192	26	25	20	27	1.99
1183416--1184599	87	13.0	87	83	6	1254	25	25	19	30	1.98
1182576--1183993	498	2.8	498	87	3	1946	26	25	18	30	1.98
1183760--1184700	101	9.9	100	83	6	923	24	25	18	31	1.98
1183306--1184700	648	2.1	646	91	1	2252	25	25	18	30	1.98
1184112--1184444	39	7.8	39	70	16	216	26	25	20	27	1.99
1184423--1184603	52	3.5	52	81	6	226	22	25	18	33	1.97
1187430--1187459	12	2.6	12	94	5	53	46	40	13	0	1.43
1191013--1191063	13	3.9	13	92	0	75	33	11	13	41	1.81
1192689--1192725	18	2.0	19	89	5	58	29	5	24	40	1.77
1194984--1195033	22	2.3	22	86	6	66	72	0	2	26	0.96
1195516--1195560	23	2.0	23	82	8	56	8	20	2	68	1.27
1197813--1197838	2	13.0	2	100	0	52	0	50	0	50	1.00
1197838--1197866	2	15.0	2	92	7	51	48	0	0	51	1.00
1203414--1203600	98	1.9	98	80	8	222	40	4	5	49	1.46
1203554--1203621	23	3.0	22	77	12	57	47	2	2	47	1.32
1203599--1203683	43	2.0	43	83	2	109	42	3	2	51	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1203635--1203694	31	2.0	29	84	12	77	35	3	3	58	1.31
1207134--1207191	17	3.2	17	73	17	53	46	0	1	51	1.11
1207135--1207178	21	2.1	21	86	0	61	45	0	2	52	1.13
1212279--1212445	35	4.9	35	83	5	234	47	5	29	17	1.70
1212281--1212445	67	2.4	68	90	6	246	47	5	28	18	1.70
1213646--1214004	51	6.9	50	70	11	238	29	25	12	32	1.92
1213645--1214140	262	1.9	261	93	1	850	28	26	13	32	1.94
1214043--1214247	79	2.6	79	79	1	214	25	28	16	29	1.97
1220347--1220545	61	3.3	60	88	7	284	27	28	20	24	1.99
1220431--1221163	153	4.8	154	86	7	974	24	28	19	27	1.98
1220589--1220711	61	2.1	59	90	6	194	24	26	19	30	1.98
1220721--1220866	59	2.5	59	86	8	203	26	28	19	26	1.99
1220901--1221006	55	1.9	55	92	3	178	29	27	19	23	1.98
1220431--1221163	308	2.4	304	87	7	1018	24	28	19	27	1.98
1221023--1221221	61	3.4	54	79	13	184	26	26	20	26	1.99
1221050--1221222	61	2.8	59	84	10	208	26	26	20	27	1.99
1221205--1221311	40	2.6	41	92	4	171	21	31	14	31	1.94
1222088--1222252	67	2.4	69	89	4	246	47	6	27	18	1.72
1222086--1222252	35	4.9	35	84	5	234	46	5	28	18	1.72
1223183--1223541	51	6.9	51	71	15	268	28	26	12	31	1.93
1223288--1223364	28	2.8	28	86	7	95	24	35	18	22	1.96
1223347--1223567	51	4.3	49	82	8	201	29	24	12	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223181--1223677	262	1.9	261	94	1	870	27	27	13	30	1.94
1223578--1223784	79	2.6	79	83	1	254	25	29	15	28	1.96
1229865--1229993	62	2.1	62	97	1	240	37	18	20	24	1.94
1231767--1232222	228	2.0	228	99	0	896	25	16	27	31	1.96
1233178--1233224	22	2.1	22	88	0	67	48	6	4	40	1.48
1233575--1233633	29	2.0	29	96	0	109	45	10	1	42	1.48
1234906--1235310	135	3.0	135	95	0	729	47	16	18	18	1.83
1235374--1235419	24	1.9	25	91	8	78	45	26	8	19	1.79
1235376--1235479	27	3.9	27	80	5	115	46	24	8	21	1.79
1237230--1237268	19	2.1	19	85	4	53	23	20	20	35	1.96

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