genome.fa.s446.2.7.7.80.10.50.1000.8.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: Scaffold446
Parameters: 2 7 7 80 10 50 1000
Length:  3567220

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

This is table  8  of  22  ( 2549 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)
1162604--1162677	22	3.6	20	78	14	80	39	2	32	25	1.70
1163282--1163335	20	2.7	20	86	13	76	33	11	18	37	1.86
1168204--1168250	18	2.6	18	83	6	51	10	46	0	42	1.38
1168235--1168295	9	6.1	9	73	17	50	13	40	0	45	1.43
1168207--1168325	42	2.8	42	87	0	157	10	42	0	46	1.45
1170335--1170388	25	2.1	27	82	6	67	40	9	7	42	1.65
1170477--1170534	26	2.2	26	81	0	71	37	18	8	34	1.82
1170567--1170762	36	5.5	36	75	6	116	36	20	9	33	1.85
1170566--1170762	107	1.9	105	81	6	245	36	20	9	32	1.86
1170602--1170756	35	4.3	35	77	3	121	38	20	8	32	1.83
1170683--1170988	36	8.7	36	70	8	137	35	17	11	35	1.86
1170887--1171002	33	3.5	33	68	4	88	38	18	10	31	1.85
1170812--1171002	68	2.7	69	76	7	190	37	17	10	33	1.85
1171090--1171153	23	2.8	23	87	0	83	32	21	14	31	1.93
1171746--1171788	15	3.0	15	80	6	54	32	2	2	62	1.20
1171673--1171916	116	2.1	116	81	6	280	38	8	10	42	1.70
1175934--1175985	21	2.7	18	82	14	59	38	0	0	61	0.96
1179467--1179517	28	2.0	24	85	14	66	54	0	0	45	0.99
1184395--1184439	23	2.0	23	82	8	56	37	22	8	31	1.85
1184837--1184890	20	2.7	20	88	5	74	31	18	12	37	1.89
1185573--1185640	21	3.1	22	79	6	59	35	19	1	44	1.60
1187447--1187683	79	3.0	77	79	6	251	31	14	27	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187694--1187862	53	3.3	50	77	14	166	31	11	25	31	1.91
1187587--1188081	263	1.9	261	93	0	846	30	13	27	28	1.94
1187898--1187968	28	2.6	27	84	8	81	22	16	36	23	1.94
1187694--1188089	51	7.6	51	71	14	263	31	12	26	29	1.92
1189004--1189073	18	3.8	18	73	16	54	7	24	38	30	1.82
1189028--1189123	43	2.2	43	98	0	183	7	22	38	31	1.82
1189059--1189116	31	1.9	30	82	3	71	6	22	39	31	1.80
1189064--1189201	55	2.5	55	85	2	152	8	23	37	30	1.85
1189533--1189608	26	3.0	26	98	1	145	11	28	7	51	1.67
1189703--1189729	6	4.5	6	100	0	54	29	0	14	55	1.40
1190444--1191594	283	4.1	282	96	0	2079	25	18	31	25	1.97
1190444--1191594	94	12.2	94	96	0	2079	25	18	31	25	1.97
1192560--1192615	27	2.2	24	81	15	60	3	3	7	85	0.81
1197193--1197313	51	2.3	52	87	4	165	34	14	23	26	1.94
1197245--1197831	79	7.4	79	94	0	978	32	15	25	26	1.95
1199047--1199226	27	6.1	27	75	22	159	17	32	7	42	1.77
1199040--1199229	61	3.1	62	87	7	298	17	32	7	42	1.77
1199169--1199240	27	2.7	27	85	8	76	15	29	8	47	1.74
1200068--1200211	45	3.4	41	82	6	128	36	15	27	20	1.93
1200196--1200390	61	3.3	61	82	10	269	24	21	28	26	1.99
1200358--1200433	39	1.9	39	89	5	118	36	14	26	22	1.92
1200304--1200489	100	1.9	99	90	1	300	28	19	27	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200403--1202974	60	42.4	60	85	6	1853	27	19	27	25	1.99
1200249--1200550	161	1.9	154	86	6	426	25	20	29	25	1.99
1200853--1200949	35	3.1	35	59	32	81	31	18	26	22	1.97
1200403--1201557	301	3.8	303	91	3	1797	27	19	27	25	1.99
1201521--1201592	35	2.0	36	97	2	137	33	16	27	22	1.95
1201460--1201652	96	2.0	95	91	3	316	30	18	26	24	1.98
1200408--1202974	760	3.3	761	90	6	3936	27	19	27	25	1.99
1201282--1202967	880	1.9	857	90	5	2656	27	19	27	25	1.99
1202101--1202174	36	2.1	36	97	0	139	31	21	25	21	1.98
1202041--1202235	96	2.0	97	95	1	356	28	20	27	23	1.99
1202137--1202974	362	2.3	362	95	0	1509	27	19	27	25	1.99
1209078--1209198	51	2.3	52	87	4	165	34	14	23	26	1.94
1209130--1209716	79	7.4	79	94	0	976	32	15	25	26	1.95
1210932--1211112	27	6.1	27	77	21	177	17	32	6	43	1.74
1210925--1211115	62	3.1	62	92	6	325	17	32	6	43	1.74
1210992--1211126	27	4.7	27	72	20	87	16	31	7	45	1.75
1220198--1220396	79	2.5	79	82	4	215	29	16	29	25	1.96
1220297--1220792	263	1.9	261	93	0	857	30	13	28	27	1.94
1220611--1220687	28	2.8	28	85	0	91	22	19	35	23	1.96
1220407--1220802	51	7.6	51	71	10	264	31	12	27	29	1.93
1221716--1221786	18	3.9	18	75	14	56	8	22	36	32	1.84
1221741--1221836	43	2.2	43	92	0	156	9	21	36	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221796--1221846	18	2.8	18	79	8	59	11	21	35	31	1.90
1221784--1221900	55	2.1	55	85	3	155	9	23	37	29	1.86
1222211--1222286	26	3.0	26	98	1	145	11	28	7	51	1.67
1224562--1224606	6	7.2	6	85	9	63	28	2	0	68	1.01
1225843--1225875	11	2.7	13	86	13	52	18	0	0	81	0.68
1225845--1225873	12	2.5	12	94	5	51	13	0	0	86	0.58
1226027--1226108	27	3.1	26	74	8	76	35	12	29	23	1.91
1226084--1226552	34	14.8	34	71	10	155	41	11	26	21	1.87
1226084--1226210	33	3.8	33	77	3	121	41	12	26	18	1.87
1226178--1226263	27	3.2	27	81	6	120	38	11	26	23	1.89
1226113--1226450	120	2.8	117	82	4	361	39	12	26	21	1.88
1226297--1226384	27	3.2	27	74	4	70	37	13	27	21	1.91
1226361--1226525	67	2.4	68	81	1	188	43	8	24	23	1.81
1226523--1226605	26	3.2	25	77	14	78	37	14	26	21	1.92
1226570--1226693	27	4.3	27	69	20	72	38	12	26	21	1.90
1226632--1226693	27	2.3	27	88	2	90	32	11	30	25	1.91
1226637--1226784	61	2.4	60	83	4	206	37	10	29	22	1.88
1226697--1226754	27	2.1	27	83	0	71	37	12	27	22	1.89
1226498--1226754	88	2.9	86	77	9	275	38	11	27	22	1.88
1226739--1226921	34	5.6	34	73	8	155	43	8	24	24	1.81
1226678--1226951	95	2.8	95	82	2	332	40	9	25	23	1.85
1226758--1226885	61	2.1	61	83	0	157	42	9	25	23	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226939--1227065	27	4.5	27	75	11	110	38	11	27	22	1.88
1226946--1227077	60	2.2	60	88	0	192	40	11	27	20	1.86
1226973--1227038	33	2.0	33	87	0	96	37	10	31	19	1.86
1227085--1227164	31	2.6	32	86	6	110	36	12	23	27	1.91
1235803--1235841	20	2.0	19	90	5	60	38	23	7	30	1.83
1235988--1236013	13	2.0	13	100	0	52	38	15	15	30	1.88
1235972--1236033	33	1.9	32	83	9	81	40	20	11	27	1.87
1242155--1242193	13	3.0	13	88	0	60	33	20	12	33	1.91
1244615--1244653	20	2.0	19	95	5	69	35	23	10	30	1.88
1244787--1244812	13	2.0	13	100	0	52	38	15	15	30	1.88
1245645--1245751	51	2.1	51	80	3	126	34	13	17	34	1.89
1253258--1253306	18	2.8	17	87	9	71	40	2	26	30	1.67
1253897--1253921	13	1.9	13	100	0	50	32	16	16	36	1.90
1253996--1254034	20	2.0	20	100	0	78	33	10	15	41	1.81
1254017--1254085	32	2.2	32	86	0	102	33	17	18	30	1.94
1254504--1254569	35	1.9	34	87	9	98	33	13	24	28	1.93
1260589--1260643	21	2.6	21	85	0	65	18	21	0	60	1.37
1260604--1260647	21	2.1	21	91	0	70	20	18	0	61	1.35
1262808--1262848	10	4.1	10	83	0	55	43	7	24	24	1.79
1262808--1262848	20	2.0	20	90	0	64	43	7	24	24	1.79
1264005--1264029	13	1.9	13	100	0	50	36	16	16	32	1.90
1271437--1271513	28	2.7	30	84	7	99	28	19	29	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273937--1274043	20	5.7	20	71	18	79	40	14	16	28	1.89
1274704--1274733	2	15.0	2	100	0	60	50	0	0	50	1.00
1282691--1282772	36	2.3	36	87	4	112	19	23	9	47	1.79
1282956--1283003	17	2.8	17	84	12	55	50	0	0	50	1.00
1282956--1282991	16	2.2	17	95	5	65	47	0	0	52	1.00
1282982--1283049	33	2.1	33	83	5	84	41	0	1	57	1.08
1283313--1283381	30	2.4	29	88	7	97	63	0	0	36	0.94
1283319--1283389	30	2.4	29	84	11	90	64	1	0	33	1.02
1283350--1283396	20	2.3	21	88	3	69	63	2	0	34	1.06
1285469--1285502	17	2.0	17	88	11	52	47	0	32	20	1.51

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