genome.fa.s282.2.7.7.80.10.50.1000.8.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: Scaffold282
Parameters: 2 7 7 80 10 50 1000
Length:  1446459

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

This is table  8  of  10  ( 1099 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)
1039996--1040208	79	2.7	79	82	2	257	35	10	24	29	1.89
1042154--1042276	31	4.0	31	91	0	183	45	8	9	35	1.69
1047147--1047172	1	26.0	1	100	0	52	0	0	100	0	0.00
1047516--1047560	5	9.2	5	82	4	56	2	20	0	77	0.87
1047947--1047988	21	2.0	21	86	13	61	40	0	0	59	0.97
1051895--1052011	58	2.0	58	86	0	162	44	20	9	25	1.81
1052129--1052241	59	1.9	58	87	1	163	52	9	11	26	1.68
1053312--1053379	23	3.0	23	69	16	61	4	20	0	75	0.98
1053301--1053378	21	3.5	22	77	10	70	3	20	1	74	1.05
1053325--1053378	22	2.4	21	82	11	63	5	18	0	75	0.98
1054464--1055016	79	7.0	78	78	4	515	34	12	23	29	1.92
1054464--1055014	235	2.3	235	81	6	632	34	12	23	29	1.91
1054464--1055025	158	3.6	157	80	3	610	34	12	23	29	1.91
1055626--1056149	61	8.5	61	83	6	603	30	17	26	25	1.98
1055626--1056149	188	2.8	182	82	6	633	30	17	26	25	1.98
1057138--1057183	8	5.9	8	82	5	58	2	2	10	84	0.79
1067481--1067511	14	2.2	14	94	0	53	83	3	0	12	0.75
1069574--1070012	79	5.6	78	80	6	447	33	14	24	27	1.94
1069582--1070012	158	2.7	156	82	4	499	34	14	24	26	1.94
1071906--1072040	50	2.7	49	81	4	153	42	15	16	25	1.87
1072972--1073013	21	2.0	22	85	4	59	38	11	11	38	1.79
1073340--1073388	15	3.3	15	85	5	64	10	6	8	75	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073354--1073418	23	2.8	24	83	2	78	7	3	9	80	1.01
1073340--1073396	15	3.7	15	77	9	53	10	7	7	75	1.19
1077216--1077284	21	3.0	23	83	10	70	40	2	2	53	1.31
1077237--1077285	21	2.3	21	92	3	80	38	4	2	55	1.31
1082923--1082976	20	2.7	20	91	5	83	37	18	12	31	1.89
1084039--1084090	19	2.7	19	93	3	86	36	13	19	30	1.90
1084075--1084101	13	2.1	13	100	0	54	40	14	14	29	1.86
1086582--1086617	13	2.8	13	86	0	54	44	16	11	27	1.82
1089563--1089588	13	2.0	13	100	0	52	30	15	15	38	1.88
1089649--1089721	20	3.6	20	81	3	101	31	19	13	35	1.91
1089627--1089721	41	2.3	42	96	1	174	29	17	12	40	1.87
1090328--1090373	16	2.8	16	93	6	74	30	39	2	28	1.69
1092179--1092217	13	3.0	13	96	0	69	35	15	17	30	1.91
1092203--1092281	20	3.7	20	70	20	70	45	16	12	25	1.82
1094291--1094328	15	2.5	15	91	0	58	13	21	15	50	1.78
1098390--1098415	13	2.0	13	100	0	52	30	15	15	38	1.88
1098476--1098548	20	3.6	20	81	3	101	31	19	13	35	1.91
1098454--1098548	41	2.3	42	96	1	174	29	17	12	40	1.87
1103631--1103664	2	17.0	2	87	0	50	50	0	0	50	1.00
1105076--1105140	29	2.2	29	94	0	112	60	3	6	30	1.37
1105614--1105654	20	2.0	20	86	9	57	39	0	0	60	0.96
1105916--1106070	51	3.2	52	84	11	179	53	5	1	40	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105940--1106111	46	3.6	47	78	10	172	54	3	2	40	1.30
1106177--1106258	22	3.7	23	74	6	71	34	9	8	47	1.67
1107304--1107424	51	2.4	52	87	10	180	39	0	2	57	1.12
1108471--1108495	2	12.5	2	100	0	50	52	0	48	0	1.00
1110153--1110216	9	7.2	9	75	8	51	57	1	0	40	1.08
1116260--1116314	20	2.8	20	88	5	76	40	12	14	32	1.84
1116762--1116826	33	2.0	33	87	0	94	35	12	16	35	1.87
1121627--1121689	19	3.7	18	72	24	64	36	19	12	31	1.89
1121619--1121689	32	2.2	32	94	0	124	36	19	12	30	1.89
1122438--1123246	49	16.9	48	76	8	648	31	17	25	24	1.97
1122438--1123246	98	8.4	98	78	7	732	31	17	25	24	1.97
1122778--1122856	39	2.0	39	90	0	122	25	20	25	29	1.99
1122680--1123222	136	3.9	136	87	3	717	31	18	25	24	1.97
1122989--1123262	101	2.7	99	86	4	356	33	17	25	23	1.96
1122957--1123246	150	2.0	146	85	5	395	32	16	25	25	1.96
1123655--1123700	20	2.2	20	80	3	56	84	10	4	0	0.75
1123929--1124009	32	2.5	32	91	0	135	28	30	20	19	1.97
1124330--1124354	13	1.9	13	100	0	50	32	16	16	36	1.90
1124342--1124394	20	2.6	21	82	8	65	37	15	16	30	1.90
1130382--1130407	8	3.2	8	100	0	52	15	0	23	61	1.33
1133069--1133093	13	1.9	13	100	0	50	32	16	16	36	1.90
1133968--1134052	32	2.8	31	83	5	111	31	31	14	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133977--1134073	32	3.1	32	84	1	124	30	30	15	22	1.95
1134130--1134603	52	8.9	52	75	7	371	23	24	14	36	1.93
1134124--1134536	156	2.7	155	81	2	416	23	24	15	36	1.93
1134487--1134707	61	3.6	61	88	0	316	25	25	12	36	1.91
1134482--1134741	122	2.1	122	83	2	333	24	25	12	38	1.90
1145183--1145294	59	1.9	59	98	1	215	44	9	23	22	1.82
1147835--1147861	13	2.1	13	100	0	54	29	14	14	40	1.86
1149771--1149824	27	2.0	27	81	3	63	37	7	22	33	1.82
1150393--1150419	13	2.1	13	100	0	54	29	14	14	40	1.86
1150374--1150440	32	2.1	33	91	2	109	29	14	14	40	1.87
1150404--1150458	19	2.8	20	86	8	69	36	14	12	36	1.84
1150488--1150541	20	2.7	20	91	5	83	33	14	18	33	1.92
1151756--1152886	572	2.0	573	98	0	2165	32	20	21	25	1.97
1155755--1155790	10	3.5	10	85	7	54	50	0	13	36	1.43
1158325--1158532	28	7.4	28	90	2	319	20	16	33	29	1.95
1159804--1159886	8	10.0	8	82	10	80	4	1	9	84	0.82
1159804--1159884	1	81.0	1	70	0	54	4	1	8	85	0.79
1159806--1159884	20	4.0	20	79	15	83	5	1	8	84	0.81
1159804--1159884	11	7.7	10	77	14	74	4	1	8	85	0.79
1159819--1159882	18	3.4	18	89	8	76	6	1	6	85	0.78
1159806--1159871	18	3.4	19	83	14	73	4	1	9	84	0.81
1159821--1159882	19	3.3	18	88	4	70	6	1	6	85	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166520--1166566	23	2.0	23	100	0	94	17	36	12	34	1.87
1176118--1176177	11	5.6	11	75	13	54	83	16	0	0	0.65
1176118--1176165	19	2.6	19	76	3	62	83	16	0	0	0.65
1177377--1177938	28	19.9	28	81	7	622	28	31	17	21	1.97
1177999--1178107	49	2.3	47	82	6	123	21	26	18	33	1.96
1180163--1184526	611	7.1	611	84	3	5540	33	16	13	36	1.88
1184246--1184759	159	3.2	157	69	15	390	31	17	13	37	1.88
1184188--1184844	318	2.1	318	85	2	872	31	17	14	36	1.90
1183578--1185465	927	2.0	928	84	3	2483	31	17	14	37	1.89
1184506--1185754	610	2.0	612	84	4	1630	31	17	14	36	1.89
1185255--1186299	545	1.9	545	84	3	1390	33	17	13	35	1.89
1185752--1189154	611	5.5	611	84	3	4055	33	16	13	36	1.88
1191192--1193516	613	3.8	610	83	3	2671	32	16	14	36	1.89
1198225--1198277	19	2.7	19	82	5	61	43	11	15	30	1.81
1199941--1199980	21	1.9	21	85	10	55	35	17	0	47	1.48
1201482--1204804	610	5.5	611	84	4	4054	32	17	13	36	1.89
1204653--1204954	150	2.0	150	93	0	514	32	16	13	37	1.88
1204803--1207381	610	4.3	609	84	4	3300	31	16	13	37	1.88
1206549--1208292	902	1.9	901	86	1	2440	32	16	12	37	1.87
1207428--1208583	610	1.9	614	84	2	1581	33	16	12	37	1.87
1209776--1211414	612	2.7	605	84	5	2107	32	16	13	37	1.88
1210897--1211925	511	2.0	511	84	2	1368	32	16	13	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211407--1213357	608	3.2	610	84	3	2731	31	17	13	37	1.88
1214438--1215491	542	1.9	542	88	1	1592	33	16	12	37	1.87
1214941--1216153	589	2.1	591	84	1	1585	32	16	13	36	1.88
1221152--1221202	24	2.1	24	85	0	66	13	37	0	49	1.43
1221141--1221253	42	2.7	42	83	2	129	14	38	0	47	1.44
1222868--1224026	587	2.0	589	86	1	1646	32	16	14	36	1.89
1223871--1224771	453	2.0	451	86	3	1260	32	17	13	35	1.89
1233711--1233916	79	2.6	79	82	2	236	29	15	29	25	1.96
1233868--1233939	28	2.6	28	86	4	92	22	19	34	23	1.96
1233789--1234204	107	3.9	107	74	9	375	30	13	28	27	1.95

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