genome.fa.s1743.2.7.7.80.10.50.1000.4.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: scaffold157
Parameters: 2 7 7 80 10 50 1000
Length:  1658850

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 570 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)
1196791--1196968	92	1.9	92	97	0	338	39	7	11	41	1.70
1215619--1215902	51	5.6	51	80	7	326	28	15	26	28	1.96
1215619--1215900	102	2.8	102	90	0	422	28	15	26	28	1.96
1220273--1220343	24	3.0	23	72	15	63	8	42	1	47	1.42
1223291--1223425	45	3.2	44	71	21	135	41	3	5	49	1.43
1223264--1223422	81	2.0	82	89	1	248	41	4	6	47	1.48
1223272--1223411	40	3.5	40	71	14	133	42	5	5	47	1.49
1223459--1223605	75	2.0	75	89	2	224	33	11	9	45	1.73
1225009--1225033	12	2.1	12	100	0	50	8	28	40	24	1.83
1230028--1230067	16	2.4	16	87	8	53	17	5	2	75	1.10
1237825--1237867	21	2.0	21	86	0	59	53	0	39	6	1.28
1245045--1245089	19	2.3	19	85	11	56	44	2	22	31	1.65
1245883--1245974	19	4.9	19	75	11	91	51	1	22	25	1.55
1246181--1246294	54	2.1	54	82	8	142	28	24	30	15	1.96
1249223--1249409	50	3.6	50	89	4	257	26	22	29	21	1.99
1249223--1249464	100	2.4	102	81	7	267	27	21	28	22	1.99
1250161--1250194	16	2.1	16	88	0	50	52	0	14	32	1.42
1255128--1255172	19	2.3	20	88	3	65	46	2	20	31	1.62
1259139--1259164	12	2.2	12	100	0	52	30	38	23	7	1.83
1259507--1259626	20	5.7	20	78	18	136	31	4	24	40	1.74
1259526--1259638	23	5.2	23	76	20	134	32	4	23	39	1.74
1259507--1259638	43	3.1	43	100	0	264	31	4	23	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265585--1265870	74	3.8	75	87	1	412	32	26	18	21	1.97
1268068--1268110	21	2.0	22	82	13	54	30	18	9	41	1.82
1270384--1270430	23	2.1	21	85	14	60	61	4	6	27	1.39
1273687--1274048	27	13.4	27	85	1	465	19	18	21	40	1.91
1278088--1278130	21	2.0	22	82	13	54	30	18	9	41	1.82
1285942--1286012	13	5.5	13	79	12	83	33	4	30	30	1.77
1285934--1286012	26	3.0	26	96	0	140	31	5	29	34	1.79
1287482--1287603	20	5.9	19	68	20	59	35	2	4	58	1.31
1287680--1287721	9	4.7	9	84	0	57	26	2	16	54	1.54
1287680--1287722	18	2.4	18	92	0	77	25	4	16	53	1.62
1287533--1287911	189	2.0	190	99	0	751	36	6	10	47	1.63
1287869--1287910	9	4.7	9	84	0	57	26	2	16	54	1.54
1287869--1287915	18	2.6	18	93	0	85	27	4	17	51	1.64
1288414--1288506	11	8.5	10	75	12	69	22	29	1	47	1.58
1288439--1288503	11	5.9	11	85	0	94	24	32	0	43	1.55
1288417--1288503	33	2.6	33	83	7	106	24	29	1	44	1.61
1288414--1288506	22	4.2	22	84	2	116	22	29	1	47	1.58
1288547--1288579	13	2.5	13	90	9	50	33	0	0	66	0.92
1293988--1294278	126	2.3	125	88	2	422	27	20	18	34	1.96
1294318--1294581	96	2.8	97	80	7	271	40	16	3	39	1.65
1294659--1294689	6	5.3	6	92	7	55	35	48	0	16	1.46
1294659--1294689	11	2.7	12	90	10	55	35	48	0	16	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300355--1300677	121	2.6	125	83	3	420	31	15	20	32	1.94
1301501--1301526	12	2.2	12	100	0	52	23	34	30	11	1.90
1304046--1304235	29	7.5	23	83	12	134	28	0	25	45	1.57
1303986--1304150	75	2.2	74	93	1	276	29	0	26	44	1.55
1304041--1304107	23	3.0	22	75	14	75	29	0	25	44	1.54
1304086--1304231	29	5.2	29	86	10	223	28	0	26	44	1.59
1304067--1304231	58	3.1	53	84	13	214	27	0	27	44	1.59
1304118--1304238	52	2.3	49	79	16	145	27	0	25	46	1.59
1304178--1304220	23	2.1	19	83	16	50	30	2	18	48	1.60
1306544--1306664	51	2.4	51	87	2	172	42	0	26	30	1.61
1306644--1306689	11	4.1	11	91	2	74	50	0	32	17	1.47
1307135--1307257	51	2.3	53	90	6	189	44	0	25	29	1.60
1307238--1307272	10	3.2	11	88	12	54	45	0	37	17	1.48
1309187--1309248	23	2.7	23	82	5	72	40	16	12	30	1.86
1309254--1309287	15	2.3	15	89	0	50	70	2	2	23	1.15
1310494--1310536	17	2.7	16	82	10	52	37	0	0	62	0.95
1310473--1310514	22	1.9	22	85	9	59	38	2	0	59	1.10
1317347--1317374	9	3.1	9	100	0	56	46	10	10	32	1.73
1318999--1319038	20	2.0	20	85	5	53	22	30	17	30	1.97
1335290--1335644	179	2.0	179	95	0	638	42	5	16	35	1.72
1337678--1337805	25	5.2	25	78	9	104	28	20	28	22	1.98
1337697--1337880	25	7.4	25	75	3	111	32	20	28	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1337678--1337863	99	1.9	99	83	4	241	30	19	29	20	1.97
1337725--1337880	50	3.1	49	77	9	140	32	19	28	18	1.96
1342733--1342968	50	4.7	50	83	2	237	28	20	29	21	1.98
1353712--1353802	45	2.0	45	100	0	182	26	13	15	45	1.83
1357082--1357148	23	3.0	23	84	8	93	19	23	20	35	1.95
1357081--1357168	21	4.1	21	85	5	104	20	22	21	35	1.96
1358037--1358065	11	2.6	11	100	0	58	93	6	0	0	0.36
1370290--1370325	18	2.0	18	89	10	56	61	0	0	38	0.96
1370911--1371023	40	2.8	39	84	5	127	31	23	23	20	1.98
1371091--1371288	41	4.9	41	75	10	140	17	21	28	32	1.96
1371369--1371486	40	3.0	40	83	1	139	32	22	22	22	1.98
1371534--1371730	41	4.8	41	78	6	168	16	23	27	31	1.96
1371595--1371690	40	2.4	41	85	5	142	13	27	28	31	1.94
1370883--1371764	442	2.0	442	96	0	1620	26	21	24	27	1.99
1372237--1372513	150	1.8	149	95	3	502	31	5	24	38	1.77
1372574--1372624	27	1.9	26	88	4	75	41	0	11	47	1.40
1372684--1372805	62	2.0	62	95	0	217	36	19	16	27	1.93
1372852--1373396	273	2.0	272	94	0	955	28	21	20	30	1.98
1373432--1373550	58	2.0	59	96	3	222	40	10	6	42	1.65
1373940--1373994	22	2.5	22	75	13	60	23	0	30	45	1.53
1373785--1374117	167	2.0	166	94	0	585	21	5	37	35	1.77
1374506--1374557	27	1.9	27	88	7	79	44	0	11	44	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375868--1375902	18	1.9	18	88	11	54	31	14	28	25	1.95
1380945--1381077	42	3.1	42	88	3	196	33	21	23	21	1.97
1382098--1382137	19	2.0	20	85	4	55	20	0	10	70	1.16
1383223--1383392	84	2.0	85	98	1	333	48	4	7	40	1.51
1390697--1390761	34	1.9	34	93	0	112	32	18	16	32	1.94
1390785--1390878	15	6.4	15	71	4	66	26	19	23	30	1.98
1390815--1390881	28	2.4	27	80	7	80	29	20	20	28	1.98
1392318--1392589	151	1.8	147	79	10	318	26	11	4	57	1.53
1392632--1392678	21	2.2	21	80	0	58	27	6	10	55	1.58
1398559--1399014	89	5.1	88	83	3	538	30	21	23	25	1.99
1398559--1398925	177	2.1	177	93	2	639	29	19	23	27	1.98
1398559--1398992	177	2.5	177	89	2	613	30	19	23	25	1.98
1398590--1399115	89	5.9	90	83	4	289	30	21	23	25	1.99
1399137--1399449	44	7.1	44	67	11	156	30	19	24	25	1.98
1399107--1399582	132	3.6	132	91	1	758	30	18	25	25	1.98
1399568--1399732	50	3.3	49	92	1	258	34	20	17	27	1.95
1400206--1400247	19	2.2	19	87	8	59	45	2	35	16	1.61
1400233--1400281	22	2.3	21	86	6	64	59	8	18	14	1.59
1401071--1401185	23	4.9	24	76	12	96	32	6	4	56	1.46
1401097--1401217	47	2.6	46	77	13	124	35	5	2	56	1.37
1401033--1401217	24	8.0	23	73	10	128	34	5	3	56	1.40
1403806--1403852	23	2.0	23	91	0	76	42	21	4	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1405017--1405124	36	3.0	36	90	4	157	34	19	11	35	1.87
1405020--1405128	35	3.1	35	89	5	157	33	19	10	36	1.85
1417599--1417708	32	3.5	32	81	6	134	38	20	21	20	1.94
1417728--1417780	27	2.0	27	85	14	74	37	24	22	15	1.92
1417933--1418107	27	6.6	27	84	2	219	25	20	18	36	1.95
1417906--1418075	53	3.2	52	78	8	182	24	18	19	38	1.93
1417933--1418107	79	2.2	81	85	5	239	25	20	18	36	1.95
1420013--1420051	18	2.2	17	86	13	53	33	0	20	46	1.51
1420269--1420390	23	5.3	23	81	0	163	22	22	24	31	1.98
1420269--1420390	46	2.7	46	89	0	190	22	22	24	31	1.98

Tables:   1   2   3   4   5