genome.fa.s9.2.7.7.80.10.50.1000.8.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  8  of  24  ( 2830 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)
1108586--1108661	21	3.7	21	82	3	109	40	11	18	28	1.86
1108568--1108661	41	2.3	41	100	0	188	38	12	19	29	1.89
1108700--1108725	13	2.0	13	100	0	52	38	15	15	30	1.88
1109182--1109248	37	1.9	35	88	11	102	32	11	25	29	1.92
1115206--1115251	21	2.2	21	84	0	56	67	8	10	13	1.42
1118585--1118659	20	3.8	20	78	7	89	40	13	13	33	1.83
1118582--1118659	40	2.0	39	87	2	111	39	14	12	33	1.84
1119431--1119483	25	2.1	26	82	10	65	54	5	7	32	1.52
1125644--1125689	21	2.1	22	88	4	67	32	15	10	41	1.82
1128707--1128733	13	2.1	13	100	0	54	40	14	14	29	1.86
1131999--1132291	101	2.9	100	90	2	446	33	18	24	23	1.96
1131950--1132294	150	2.3	153	85	4	448	34	17	24	23	1.96
1131950--1132294	49	6.8	49	85	4	420	34	17	24	23	1.96
1135534--1135608	20	3.8	20	77	10	82	41	13	12	33	1.81
1135531--1135608	40	2.0	39	85	7	104	41	14	11	33	1.81
1136176--1138525	28	81.2	28	81	7	1855	22	18	30	28	1.97
1136180--1138523	56	40.5	56	81	7	2223	22	18	30	28	1.97
1136803--1137153	32	11.2	32	81	7	274	19	19	29	30	1.97
1136706--1138523	28	62.9	28	84	5	1981	21	18	31	29	1.97
1141659--1141733	20	3.8	20	76	0	69	41	10	13	34	1.79
1141656--1141733	40	2.0	39	84	2	102	41	11	12	34	1.80
1141932--1142493	49	12.1	49	74	14	485	31	18	25	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142044--1142395	136	2.6	136	92	1	562	30	19	25	25	1.98
1142229--1142485	88	2.9	88	87	0	327	29	19	24	26	1.98
1141943--1142493	224	2.4	229	85	6	731	31	19	25	24	1.98
1143543--1143581	16	2.4	16	86	0	51	0	0	15	84	0.62
1143823--1143869	12	4.0	12	80	20	55	0	2	14	82	0.75
1143826--1143869	15	3.1	14	81	15	54	0	2	15	81	0.78
1150872--1150898	13	2.1	13	100	0	54	40	14	14	29	1.86
1150951--1151013	19	3.7	18	72	24	55	38	15	11	34	1.83
1150943--1151013	32	2.2	32	92	0	115	38	16	11	33	1.85
1150970--1150994	13	1.9	13	100	0	50	32	16	16	36	1.90
1153345--1153383	13	2.9	14	81	14	55	35	15	12	35	1.86
1158150--1158349	77	2.6	78	83	3	224	30	16	28	25	1.97
1158301--1158372	28	2.6	28	86	0	90	25	19	33	22	1.97
1158360--1158750	52	7.5	52	69	12	228	32	12	25	29	1.92
1158452--1158581	51	2.5	51	80	6	145	35	14	23	26	1.93
1158250--1158750	263	1.9	262	86	3	720	32	13	25	28	1.94
1161109--1161134	13	2.0	13	100	0	52	38	15	15	30	1.88
1161088--1161154	33	2.0	33	88	0	98	43	16	14	25	1.86
1161174--1161241	19	3.9	18	76	23	83	38	14	11	35	1.83
1161196--1161220	13	1.9	13	100	0	50	32	16	16	36	1.90
1161177--1161239	32	2.0	32	96	0	117	36	15	12	34	1.86
1161297--1161395	21	4.7	21	96	0	180	37	20	10	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162276--1162357	26	2.9	29	65	23	75	20	20	29	29	1.98
1162190--1162976	59	13.4	59	89	4	1019	26	20	27	26	1.99
1166401--1166448	20	2.5	19	80	12	62	31	14	16	37	1.89
1167322--1167352	9	3.4	9	100	0	62	80	0	0	19	0.71
1175858--1175917	16	3.8	16	76	8	59	43	13	15	28	1.84
1176761--1176843	32	2.6	32	86	5	105	51	12	4	31	1.59
1176787--1176838	16	3.2	16	77	0	59	55	9	3	30	1.50
1176845--1176892	15	3.3	15	91	5	80	66	0	0	33	0.92
1176825--1176892	29	2.5	27	85	7	84	64	0	0	35	0.94
1178052--1178083	16	2.1	16	94	5	57	75	0	0	25	0.81
1186014--1186067	20	2.7	20	85	8	74	38	12	18	29	1.88
1186123--1186261	51	2.7	52	84	1	190	30	14	13	41	1.84
1187834--1188029	97	2.0	97	92	0	329	34	10	11	43	1.75
1188765--1188962	79	2.5	79	85	3	247	30	25	12	31	1.92
1191317--1191361	20	2.1	22	88	8	67	48	6	8	35	1.61
1191456--1191519	33	2.0	33	90	3	103	29	15	17	37	1.91
1191569--1191593	13	1.9	13	100	0	50	32	16	16	36	1.90
1196697--1196750	20	2.6	21	85	2	74	29	14	12	42	1.83
1197539--1197572	16	2.1	16	94	0	59	38	8	14	38	1.78
1197587--1197706	48	2.5	48	83	0	141	38	13	14	34	1.85
1197610--1197706	16	6.1	16	71	0	59	39	13	13	34	1.84
1201054--1201108	20	2.6	22	80	16	71	45	14	12	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209838--1209889	26	2.0	26	100	0	104	23	26	15	34	1.94
1210048--1210228	31	5.9	31	78	11	169	23	30	12	32	1.92
1210072--1210229	61	2.5	66	82	11	186	23	29	11	35	1.90
1210287--1210363	40	2.0	40	84	2	102	23	19	12	44	1.85
1210346--1210425	40	1.9	40	82	7	97	17	23	17	41	1.90
1210294--1210637	41	8.5	41	72	11	192	20	22	14	42	1.88
1210294--1210548	120	2.1	122	81	8	301	21	22	14	40	1.90
1210694--1210779	31	2.8	31	72	0	91	26	24	27	20	1.99
1210840--1210928	31	2.8	32	74	17	105	24	26	26	21	1.99
1210694--1210987	149	2.0	149	87	1	428	28	22	24	24	2.00
1211485--1211542	20	2.8	21	78	2	73	41	13	15	29	1.86
1216303--1216487	79	2.4	79	78	9	184	38	10	21	29	1.87
1216523--1216700	51	3.5	51	84	2	207	34	12	25	28	1.92
1218996--1219152	20	7.8	20	71	18	112	41	14	16	28	1.87
1219818--1219940	43	3.0	40	74	19	117	41	14	24	19	1.89
1219915--1220158	61	4.0	61	80	7	246	27	18	28	25	1.98
1219924--1220148	122	1.9	121	84	4	310	25	19	28	25	1.99
1219982--1220392	215	1.9	214	84	5	553	25	19	29	26	1.98
1220197--1220448	55	4.4	56	85	6	296	21	21	30	26	1.98
1220367--1220453	26	3.3	26	67	16	70	21	19	31	27	1.98
1219921--1220668	270	2.8	270	87	3	997	25	19	30	25	1.98
1220457--1220668	60	3.6	60	84	6	267	25	18	30	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1220248--1220766	215	2.5	209	89	3	774	25	18	30	25	1.98
1221754--1221810	30	1.9	29	92	3	96	1	3	10	84	0.82
1221761--1221815	21	2.7	20	80	8	65	1	1	10	85	0.75
1234187--1234262	28	2.7	28	91	0	125	30	17	27	25	1.97
1234341--1234546	76	2.7	77	84	7	267	33	13	27	26	1.94
1234566--1234700	51	2.7	51	84	3	166	35	11	25	28	1.90
1236213--1237192	489	2.0	490	95	1	1750	36	19	16	27	1.93
1237455--1237480	13	2.0	13	100	0	52	30	15	15	38	1.88
1237435--1237498	32	2.0	33	87	3	94	28	14	17	40	1.88
1238211--1238254	21	2.1	21	83	8	54	25	31	4	38	1.76
1240055--1240092	13	2.9	13	96	0	67	31	15	18	34	1.92
1244005--1244049	21	2.1	21	84	8	56	22	20	4	53	1.63
1244183--1244215	16	2.1	16	88	5	50	30	12	3	54	1.52
1246269--1246294	13	2.0	13	100	0	52	30	15	15	38	1.88
1246249--1246312	32	2.0	33	87	3	94	28	14	17	40	1.88
1246773--1246865	44	2.2	43	86	7	127	22	22	11	43	1.86
1246789--1246879	44	2.1	44	97	0	173	20	25	10	42	1.85
1248874--1248898	13	1.9	13	100	0	50	32	16	20	32	1.94
1250980--1251010	15	2.1	15	100	0	62	12	19	16	51	1.76
1252811--1252855	21	2.1	21	84	8	56	22	20	4	53	1.63
1255077--1255102	13	2.0	13	100	0	52	30	15	15	38	1.88
1256302--1256375	20	3.7	20	90	3	105	40	12	17	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256302--1256398	40	2.4	41	81	8	110	38	12	18	30	1.88
1265654--1266267	78	7.8	78	78	6	544	35	13	24	26	1.92
1265745--1266267	79	6.6	79	80	4	513	35	13	24	26	1.92
1265745--1266270	238	2.2	237	78	6	571	35	13	24	26	1.92
1267947--1267994	21	2.4	22	80	16	59	20	22	10	45	1.81
1286280--1286923	28	23.2	28	81	7	717	29	29	17	23	1.97
1293863--1293904	12	3.5	12	81	9	50	83	11	4	0	0.79
1293864--1293924	13	5.0	12	80	9	70	83	9	6	0	0.80
1293864--1293933	25	2.7	26	81	18	85	82	10	5	1	0.88
1293864--1293934	14	5.1	14	77	16	67	83	9	5	1	0.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24