genome.fa.s215.2.7.7.80.10.50.1000.8.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: Scaffold215
Parameters: 2 7 7 80 10 50 1000
Length:  2124891

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  8  of  16  ( 1860 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)
1145416--1145459	14	3.3	14	90	6	65	45	0	0	54	0.99
1145748--1146197	165	2.7	165	80	3	494	39	7	18	34	1.79
1146265--1146461	92	2.1	92	86	5	265	40	9	17	32	1.81
1147285--1147339	20	2.8	20	88	0	74	32	21	10	34	1.89
1147325--1147354	13	2.3	13	100	0	60	36	13	16	33	1.88
1155931--1155994	33	1.9	33	87	6	94	40	14	17	28	1.88
1156026--1156069	19	2.3	19	100	0	88	34	20	11	34	1.88
1157047--1157081	13	2.7	13	90	0	52	34	20	11	34	1.88
1157284--1157340	30	1.9	30	85	7	80	61	14	3	21	1.47
1161644--1161678	3	11.7	3	93	0	61	28	34	0	37	1.58
1161642--1161680	12	3.2	12	92	0	69	25	33	0	41	1.56
1163226--1163276	20	2.5	20	87	0	66	31	21	11	35	1.90
1168596--1168653	20	2.9	21	80	14	68	41	12	15	31	1.84
1173975--1174021	21	2.2	20	79	17	51	36	2	0	61	1.08
1176250--1176356	34	3.1	34	94	0	178	38	6	25	29	1.81
1177339--1177528	71	2.7	69	80	12	224	54	15	1	28	1.51
1177950--1177996	22	2.2	21	84	3	58	40	4	0	55	1.19
1178027--1178071	8	5.4	8	84	10	63	33	0	0	66	0.92
1178027--1178071	17	2.6	17	96	0	81	33	0	0	66	0.92
1179651--1179676	13	2.0	13	100	0	52	38	15	15	30	1.88
1179728--1179778	20	2.5	21	83	3	68	27	15	15	41	1.88
1179782--1179832	20	2.5	20	80	0	57	35	15	13	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182087--1182127	22	2.0	20	86	13	57	43	4	19	31	1.72
1182097--1182137	22	1.9	22	85	5	57	48	4	17	29	1.67
1182258--1182296	13	3.0	13	84	0	51	30	12	15	41	1.85
1182587--1182612	13	2.0	13	100	0	52	38	15	15	30	1.88
1184580--1184637	29	2.0	29	100	0	116	48	13	10	27	1.75
1188656--1188707	20	2.5	21	87	3	70	28	17	15	38	1.90
1188709--1188759	20	2.5	20	83	0	57	33	13	17	35	1.89
1199496--1199605	51	2.2	51	80	3	114	41	11	15	30	1.83
1200062--1200119	23	2.5	23	97	0	107	37	15	1	44	1.57
1201042--1201107	19	3.8	19	77	22	90	33	12	18	36	1.88
1201043--1201105	32	2.0	32	100	0	126	33	12	19	34	1.89
1201062--1201086	13	1.9	13	100	0	50	36	16	16	32	1.90
1201182--1201311	52	2.5	52	89	1	215	33	16	18	30	1.94
1208909--1208935	13	2.1	13	100	0	54	29	14	14	40	1.86
1208890--1208954	33	2.0	32	87	3	94	29	13	15	41	1.86
1208919--1208976	19	3.1	18	83	11	80	34	13	17	34	1.89
1208920--1208975	20	2.8	20	86	7	80	32	14	17	35	1.90
1209085--1209122	20	2.0	20	94	5	69	36	10	15	36	1.82
1218400--1218425	13	2.0	13	100	0	52	30	15	15	38	1.88
1219057--1219137	39	2.1	39	83	2	99	37	25	3	33	1.74
1220500--1220542	20	2.1	20	86	4	59	9	30	44	16	1.79
1220983--1221021	13	3.0	13	96	0	69	35	15	17	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227198--1227223	13	2.0	13	100	0	52	30	15	15	38	1.88
1227272--1227345	20	3.7	20	82	8	78	29	17	14	37	1.90
1227671--1227735	33	2.0	32	87	3	94	29	13	15	41	1.86
1227696--1227757	20	3.2	20	86	11	92	33	14	17	33	1.90
1227785--1227835	19	2.6	19	84	9	68	33	13	17	35	1.89
1227872--1227909	20	2.0	20	94	5	69	36	10	15	36	1.82
1233791--1233862	20	3.6	20	75	0	81	41	11	12	34	1.78
1235447--1235500	20	2.7	20	83	13	67	33	18	14	33	1.92
1235529--1235582	19	2.8	20	85	2	74	37	14	16	31	1.89
1237229--1237253	13	1.9	13	100	0	50	36	8	16	40	1.77
1242375--1242399	13	1.9	13	100	0	50	32	16	16	36	1.90
1242355--1242419	33	2.0	33	90	0	103	32	16	15	35	1.91
1244235--1244355	50	2.4	51	83	6	142	40	13	26	19	1.88
1246413--1246534	16	7.6	16	72	6	95	46	5	0	46	1.32
1247897--1247931	17	2.1	17	94	0	61	14	17	14	54	1.72
1257708--1257768	20	3.0	20	81	6	79	39	11	16	32	1.84
1259036--1259094	19	3.1	19	82	2	73	37	13	15	33	1.86
1259040--1259094	20	2.8	19	83	2	65	36	12	16	34	1.87
1262865--1262890	13	2.0	13	100	0	52	30	15	15	38	1.88
1262990--1263014	13	1.9	13	100	0	50	36	16	16	32	1.90
1263024--1263062	20	2.0	19	95	5	69	30	10	23	35	1.88
1263482--1263536	20	2.7	21	85	5	76	34	20	12	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263563--1263620	19	2.9	20	82	7	73	36	17	13	32	1.89
1263606--1263632	13	2.1	13	100	0	54	40	14	14	29	1.86
1272051--1272077	13	2.1	13	100	0	54	29	14	14	40	1.86
1272032--1272094	33	1.9	32	87	9	92	26	15	15	41	1.88
1272061--1272117	19	2.9	19	84	2	78	29	15	19	35	1.93
1277934--1277973	21	1.9	21	89	0	62	37	22	15	25	1.93
1279156--1279207	19	2.7	20	81	3	70	34	19	15	30	1.93
1279236--1279287	20	2.5	21	87	3	70	34	15	13	36	1.87
1283473--1283511	18	2.2	18	95	0	69	15	20	12	51	1.76
1286755--1286819	33	2.0	33	87	0	94	32	15	15	36	1.89
1287106--1287145	21	2.0	21	85	14	57	27	15	7	50	1.70
1287820--1287886	33	2.0	33	82	5	82	28	14	29	26	1.96
1296762--1296836	20	3.8	20	87	0	114	32	14	13	40	1.85
1303228--1303283	20	2.8	19	83	5	67	37	16	16	30	1.90
1312567--1312641	1	75.0	1	75	0	60	86	6	1	5	0.75
1312568--1312641	26	2.9	27	82	13	93	86	6	1	5	0.76
1313858--1314422	28	19.5	28	82	7	598	28	30	18	23	1.97
1313858--1314422	117	4.9	114	87	4	742	28	30	18	23	1.97
1313858--1314422	57	9.7	58	85	7	686	28	30	18	23	1.97
1314499--1314621	49	2.6	46	81	7	131	21	26	20	30	1.98
1314814--1316617	62	29.3	62	79	4	1720	24	26	19	29	1.98
1316623--1333273	62	269.1	62	79	3	15312	23	26	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316394--1316847	230	2.0	229	82	5	551	23	26	20	29	1.99
1316623--1335337	124	151.3	124	78	4	17280	23	26	20	30	1.98
1316623--1335337	186	100.9	185	79	4	16954	23	26	20	30	1.98
1317265--1317557	99	2.9	99	81	1	282	22	27	19	30	1.98
1322221--1322513	99	2.9	99	81	1	300	22	27	19	30	1.98
1333299--1335337	62	32.9	62	82	3	2264	22	26	20	29	1.98
1339396--1339523	49	2.6	47	82	6	166	32	17	25	25	1.97
1339343--1339610	87	2.8	97	80	9	243	31	17	25	25	1.97
1339396--1339834	48	9.7	48	71	15	272	30	17	25	26	1.97
1339493--1339642	39	3.6	38	72	18	120	27	20	25	27	1.99
1339444--1339783	87	3.9	87	88	1	479	28	18	25	27	1.98
1339579--1339729	39	3.6	39	74	14	149	29	19	25	25	1.99
1339705--1339834	50	2.7	47	80	4	145	28	16	27	27	1.97
1339862--1339956	29	3.3	30	78	10	108	16	16	32	33	1.92
1339930--1340000	34	2.1	35	81	2	81	38	15	30	15	1.89
1339997--1340437	34	14.2	27	84	12	229	33	12	34	19	1.89
1340077--1340538	34	13.9	34	86	8	605	35	12	33	19	1.88
1340055--1340569	164	3.1	164	95	0	906	34	12	33	19	1.89
1339936--1340538	130	4.7	129	81	12	617	34	13	33	19	1.90
1340077--1340603	34	15.8	34	84	9	590	35	12	32	19	1.89
1340584--1340667	28	3.0	28	79	6	89	21	19	29	29	1.97
1342088--1342201	25	4.7	23	81	11	106	0	5	9	84	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1342085--1342201	34	3.6	32	76	11	96	0	5	9	83	0.84
1342120--1342201	1	82.0	1	75	0	74	1	4	6	87	0.70
1342086--1342174	35	2.5	34	85	8	108	1	2	12	84	0.78
1342086--1342175	46	2.0	46	84	4	119	1	2	12	84	0.77
1342095--1342191	46	2.2	43	80	9	104	1	5	9	84	0.81
1342086--1342201	10	11.5	10	76	14	87	0	5	9	84	0.81
1356091--1356154	23	2.9	23	90	6	98	29	12	23	34	1.92
1356579--1362586	62	97.1	62	80	3	5390	23	26	19	30	1.98
1362794--1362818	13	1.9	13	100	0	50	32	16	16	36	1.90
1362806--1362858	20	2.6	21	82	8	65	37	16	16	28	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16