genome.fa.s19.2.7.7.80.10.50.1000.5.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: scaffold337
Parameters: 2 7 7 80 10 50 1000
Length:  2178121

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 806 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)
1206799--1207161	180	2.0	180	99	0	717	29	14	6	49	1.68
1216637--1216684	14	3.4	14	85	2	69	20	39	18	20	1.92
1216637--1216695	28	2.1	29	90	3	93	25	35	18	20	1.95
1216911--1216969	23	2.6	22	76	7	66	32	23	11	32	1.91
1216978--1217035	15	3.8	16	90	6	77	29	29	22	18	1.98
1216998--1217152	15	10.3	15	77	6	125	30	20	20	29	1.97
1216995--1217237	30	8.1	30	76	3	157	30	20	19	28	1.97
1216983--1217171	91	2.1	91	79	2	200	30	21	20	28	1.98
1217124--1217236	45	2.5	46	78	2	131	32	20	17	29	1.96
1216999--1217237	15	15.9	15	75	6	115	31	20	19	28	1.97
1217721--1217756	18	2.0	18	100	0	72	33	27	27	11	1.91
1218574--1218621	21	2.2	23	88	7	73	75	2	10	12	1.14
1225265--1225293	14	2.1	14	93	6	51	82	0	13	3	0.79
1230726--1230750	11	2.3	11	100	0	50	20	20	16	44	1.87
1231200--1231253	26	2.1	26	100	0	108	25	12	22	38	1.90
1234832--1234948	59	2.0	59	84	0	153	25	15	15	43	1.86
1235675--1235738	31	2.1	30	85	5	85	25	14	10	50	1.75
1236154--1236199	3	15.3	3	100	0	92	32	0	0	67	0.91
1246504--1246528	5	5.0	5	100	0	50	40	0	0	60	0.97
1250476--1250521	3	15.3	3	100	0	92	67	0	0	32	0.91
1260995--1261081	44	2.0	44	88	4	131	47	8	12	32	1.71
1262835--1262881	23	2.1	22	84	4	58	61	27	2	8	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263851--1264140	107	2.7	107	91	3	469	35	18	15	29	1.93
1266545--1266961	183	2.3	183	92	0	692	27	21	20	30	1.98
1266835--1266949	44	2.6	44	80	2	115	27	23	21	26	1.99
1267079--1267183	45	2.4	45	81	6	119	29	19	19	32	1.96
1267161--1267436	148	1.9	146	84	5	367	30	21	17	30	1.96
1267306--1267540	104	2.3	104	84	1	292	31	20	17	31	1.95
1267546--1267637	44	2.1	44	83	0	112	26	26	20	27	1.99
1267910--1267968	24	2.5	24	85	0	82	27	23	13	35	1.92
1268440--1268644	108	1.9	107	85	1	284	46	10	17	25	1.80
1268970--1269019	12	4.3	12	87	7	77	2	14	0	84	0.72
1268969--1269029	7	8.7	7	82	13	65	3	13	0	83	0.76
1268969--1269031	23	2.7	23	90	5	90	3	12	0	84	0.75
1268972--1269030	30	2.0	30	90	6	93	3	13	0	83	0.78
1269585--1269643	21	2.8	20	80	14	57	54	3	1	40	1.27
1273214--1273489	107	2.6	107	92	0	453	34	19	15	30	1.93
1274058--1274092	14	2.5	14	95	0	61	48	0	8	42	1.33
1274052--1274076	10	2.5	10	100	0	50	52	0	8	40	1.31
1274120--1274194	29	2.5	31	78	6	91	44	1	12	42	1.50
1274238--1274274	19	1.9	19	94	0	65	56	0	8	35	1.29
1275734--1275876	44	3.4	43	80	6	150	27	22	20	29	1.98
1275906--1276279	132	2.8	132	90	0	579	27	23	18	30	1.98
1275944--1276276	44	7.6	44	66	15	152	27	24	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1277587--1277662	14	5.3	14	76	7	73	1	14	1	82	0.79
1277594--1277660	10	6.9	10	74	16	52	1	14	1	82	0.82
1277592--1277664	34	2.1	34	85	9	96	1	13	1	83	0.78
1277587--1277664	24	3.2	24	78	10	86	1	14	1	83	0.78
1277608--1277675	21	3.3	20	80	10	66	4	10	2	82	0.92
1277608--1277675	34	2.0	33	82	2	82	4	10	2	82	0.92
1288504--1288658	43	3.6	43	75	7	154	26	16	26	30	1.97
1292510--1293117	114	5.3	114	92	0	982	22	21	26	29	1.99
1294102--1294155	21	2.6	21	72	21	51	50	1	5	42	1.36
1294185--1294224	17	2.3	18	91	4	64	85	0	2	12	0.71
1294185--1294224	12	3.5	11	86	10	53	85	0	2	12	0.71
1294168--1294305	70	2.0	70	92	2	235	69	4	2	23	1.20
1294234--1294293	30	2.0	30	87	6	86	70	0	3	26	1.03
1294245--1294283	20	1.9	21	89	5	62	74	0	0	25	0.82
1294289--1294387	47	2.1	48	86	1	137	45	10	1	43	1.44
1294462--1294994	192	2.7	193	90	4	807	31	17	24	26	1.97
1297946--1299436	174	8.6	174	100	0	2982	29	20	28	21	1.98
1301308--1301337	15	2.0	15	100	0	60	33	13	6	46	1.69
1302569--1302636	33	2.1	33	97	0	127	29	19	25	26	1.98
1309876--1309942	28	2.4	27	70	7	62	34	23	22	19	1.97
1310088--1310161	22	3.3	22	68	9	60	44	17	18	18	1.87
1310153--1310354	32	6.4	32	81	1	228	38	20	19	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310167--1310354	63	3.0	64	91	1	288	37	21	19	21	1.94
1310153--1310357	95	2.2	96	83	4	263	38	20	19	20	1.94
1310515--1310581	24	2.8	24	80	8	73	47	22	5	23	1.73
1310673--1310960	27	10.7	27	73	9	203	25	18	18	36	1.94
1310660--1310960	134	2.2	135	85	4	394	26	19	17	36	1.94
1311317--1311354	19	2.1	18	85	9	51	28	36	15	18	1.92
1315501--1315600	44	2.3	44	84	5	123	47	3	8	42	1.48
1316141--1316273	67	2.0	65	91	2	212	39	18	13	28	1.89
1319640--1319755	61	1.9	60	85	1	160	34	2	5	57	1.34
1319732--1319775	23	2.0	22	82	13	54	31	0	6	61	1.22
1321872--1321928	28	2.0	28	100	0	114	40	17	10	31	1.84
1324341--1324375	16	2.2	16	94	0	61	34	14	14	37	1.86
1343080--1343123	23	2.0	22	82	13	54	31	0	6	61	1.22
1351568--1351657	32	2.8	32	93	0	144	40	18	18	22	1.92
1351672--1351742	27	2.7	25	83	12	81	35	19	22	22	1.96
1351822--1351888	24	2.8	24	82	8	82	46	22	7	23	1.77
1352034--1352152	27	4.4	27	75	5	109	26	17	18	37	1.93
1352034--1352239	54	3.8	54	75	10	172	27	19	16	36	1.93
1351993--1352239	134	1.8	135	87	2	372	28	19	17	35	1.94
1375887--1375925	10	4.0	10	86	3	53	51	0	7	41	1.31
1377988--1378086	44	2.3	44	84	6	123	48	3	8	40	1.48
1380063--1380179	61	1.9	61	91	0	189	32	2	5	59	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1380156--1380199	23	2.0	22	82	13	54	31	0	6	61	1.22
1387031--1387082	26	2.0	26	88	0	77	32	21	25	21	1.98
1387083--1387147	22	3.0	22	74	0	67	44	16	20	18	1.87
1387139--1387277	32	4.4	32	78	0	145	42	17	17	22	1.89
1387599--1387884	27	10.6	27	70	5	184	26	19	18	34	1.95
1387567--1387735	81	2.1	80	82	3	203	28	17	21	32	1.96
1387596--1387881	54	5.3	54	72	12	219	26	19	19	34	1.96
1387596--1387867	108	2.5	107	82	2	357	26	19	19	34	1.96
1389055--1389125	18	3.8	18	78	14	90	45	14	5	35	1.68
1392840--1393084	123	2.0	123	99	0	481	31	10	24	33	1.90
1399590--1399722	66	2.0	66	100	0	266	40	19	12	27	1.87
1400244--1400293	25	2.0	25	84	11	66	54	2	2	42	1.23
1400770--1400886	61	1.9	61	87	3	173	30	1	5	62	1.27
1400863--1400906	23	2.0	22	82	13	54	31	0	6	61	1.22
1400930--1401513	296	2.0	296	95	0	1060	44	11	8	35	1.72
1402032--1402147	61	1.9	60	87	1	169	33	2	5	58	1.34
1402124--1402167	23	2.0	22	82	13	54	31	0	6	61	1.22
1402507--1402790	4	71.0	4	100	0	568	25	0	25	50	1.50
1403731--1403942	42	5.1	42	87	1	275	31	17	20	30	1.96
1403750--1403985	84	2.8	84	85	6	250	30	19	22	28	1.98
1405014--1405641	143	4.4	143	87	1	882	28	22	19	29	1.98
1406469--1406533	17	3.7	17	80	8	67	1	12	3	83	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406464--1406540	24	3.0	26	80	14	74	2	14	2	80	0.93
1406475--1406539	18	3.5	18	77	12	60	3	10	3	83	0.88
1409212--1409256	23	2.0	22	87	12	65	37	6	22	33	1.80
1409220--1409263	18	2.4	18	88	11	63	43	6	20	29	1.78
1414143--1414284	60	2.3	61	77	7	144	38	4	14	42	1.68
1414885--1415902	509	2.0	509	100	0	2036	35	14	16	33	1.89
1425443--1425584	60	2.3	61	77	9	146	37	4	15	42	1.69
1428453--1428482	6	5.0	6	100	0	60	33	0	0	66	0.92
1433223--1433274	22	2.4	22	100	0	104	38	3	15	42	1.65
1441170--1441209	20	2.0	20	90	0	62	25	12	10	52	1.70

Tables:   1   2   3   4   5   6   7