genome.fa.s1.2.7.7.80.10.50.1000.8.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: Scaffold1
Parameters: 2 7 7 80 10 50 1000
Length:  8764944

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   

This is table  8  of  52  ( 6211 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)
1288049--1288073	13	1.9	13	100	0	50	32	16	16	36	1.90
1292223--1292284	21	3.0	21	92	4	99	35	17	22	24	1.95
1293154--1293224	20	3.5	20	80	0	79	40	9	12	36	1.77
1297660--1297712	19	2.7	20	85	2	63	43	11	13	32	1.79
1298253--1298293	21	2.0	21	85	0	55	24	26	2	46	1.65
1300108--1300141	6	5.7	6	86	13	52	82	14	0	2	0.79
1306144--1306195	19	2.7	20	90	3	79	38	13	17	30	1.88
1306407--1306445	20	1.9	21	89	5	62	23	12	12	51	1.74
1314434--1314487	20	2.7	20	85	0	72	44	14	11	29	1.80
1315334--1315709	49	7.8	48	81	10	349	31	16	26	25	1.96
1315325--1315714	92	4.1	93	79	12	328	32	15	27	24	1.96
1315334--1315714	141	2.6	145	84	6	497	31	16	27	24	1.96
1315276--1315709	49	8.8	49	80	9	334	32	16	26	25	1.96
1315702--1315795	32	3.0	31	84	9	120	18	17	35	29	1.93
1315774--1315864	35	2.6	34	81	5	103	38	12	28	20	1.89
1315841--1316130	30	10.0	29	81	5	309	25	17	27	29	1.97
1315843--1316134	57	5.0	58	86	4	324	25	17	27	29	1.97
1315850--1316130	87	3.2	86	86	3	341	24	17	27	30	1.97
1320319--1320357	7	5.7	7	87	6	62	87	2	0	10	0.65
1320317--1320357	20	2.0	20	95	0	73	85	2	0	12	0.70
1320319--1320356	13	2.8	13	92	4	58	86	2	0	10	0.66
1320644--1320716	36	2.0	36	91	0	119	34	15	6	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322425--1322513	29	3.2	27	80	9	106	34	31	14	19	1.92
1322504--1322614	34	3.5	33	77	15	117	15	35	14	35	1.88
1322551--1322603	27	2.0	27	88	0	79	18	39	16	24	1.91
1322611--1322805	33	6.0	32	86	5	275	28	31	17	21	1.96
1322617--1322817	65	3.1	66	92	3	329	29	32	17	19	1.95
1323027--1323079	19	2.7	20	91	2	90	32	11	16	39	1.85
1323094--1323152	21	2.8	21	100	0	118	38	16	10	33	1.83
1323139--1323163	13	1.9	13	100	0	50	32	16	16	36	1.90
1323172--1323300	52	2.5	52	90	0	213	34	18	19	27	1.95
1326685--1326711	13	2.1	13	100	0	54	29	14	14	40	1.86
1326695--1326751	19	2.9	19	84	2	78	31	17	14	36	1.89
1328385--1328424	20	2.1	19	90	4	62	35	7	15	42	1.75
1329209--1329252	21	2.1	21	83	8	54	25	31	4	38	1.76
1336262--1336354	40	2.3	40	87	3	125	31	15	20	33	1.93
1336261--1336334	20	3.7	20	81	5	87	33	16	17	32	1.92
1336727--1336776	21	2.4	21	83	9	59	48	0	20	32	1.50
1336734--1336776	21	2.0	22	86	4	61	51	0	20	27	1.48
1349015--1349041	13	2.1	13	100	0	54	29	14	14	40	1.86
1351136--1351178	20	2.1	20	86	4	59	9	25	44	20	1.81
1351610--1351687	20	3.7	20	71	18	59	43	14	15	26	1.85
1353702--1353732	15	2.1	15	93	0	53	12	22	16	48	1.80
1361913--1361937	13	1.9	13	100	0	50	32	20	24	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365961--1366006	16	2.9	16	84	12	51	32	15	2	50	1.56
1367446--1367477	16	1.9	17	93	6	57	37	15	0	46	1.46
1374292--1374343	23	2.3	22	83	9	68	0	21	0	78	0.74
1374303--1374343	13	3.1	13	92	3	64	0	19	0	80	0.71
1374292--1374330	10	4.0	10	93	3	62	0	20	0	79	0.73
1374828--1375299	167	2.8	166	80	5	454	48	10	11	29	1.73
1377121--1377162	13	3.2	13	82	0	57	35	21	14	28	1.92
1377236--1377266	10	3.1	10	95	0	53	45	9	25	19	1.81
1379727--1379792	30	2.5	25	80	20	80	30	16	13	39	1.87
1379823--1379875	20	2.6	21	82	8	65	28	16	16	37	1.91
1379863--1379887	13	1.9	13	100	0	50	36	16	16	32	1.90
1379876--1380110	111	2.1	111	99	0	461	29	17	17	35	1.93
1392202--1392274	20	3.6	20	81	9	76	28	13	15	42	1.85
1398600--1398644	21	2.1	21	84	8	56	22	20	4	53	1.63
1400526--1400584	32	1.9	30	83	13	75	59	10	10	20	1.58
1400844--1400906	34	1.9	32	93	6	108	28	11	15	44	1.81
1400844--1400906	13	3.5	19	72	28	66	28	11	15	44	1.81
1403078--1403672	166	3.6	161	82	7	635	28	12	7	51	1.66
1403107--1403777	332	2.0	327	78	9	686	28	12	8	50	1.70
1404330--1404389	11	5.6	10	81	13	66	80	3	16	0	0.85
1409781--1409909	51	2.5	51	88	0	177	45	11	15	27	1.80
1410928--1411393	28	16.5	28	84	3	540	27	18	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1410929--1411397	170	2.8	168	86	2	629	27	18	27	27	1.98
1413486--1413534	13	4.2	13	71	28	56	38	18	12	30	1.87
1413486--1413550	33	2.0	33	90	0	103	38	16	13	30	1.88
1425304--1425447	51	2.8	51	92	0	225	43	10	18	27	1.82
1426524--1426549	13	2.0	13	100	0	52	38	15	15	30	1.88
1428766--1428810	21	2.1	21	84	8	56	53	4	20	22	1.63
1430610--1430640	15	2.1	15	93	0	53	48	16	22	12	1.80
1434569--1434628	30	2.0	30	100	0	120	36	6	26	30	1.82
1435270--1435295	13	2.0	13	100	0	52	38	15	15	30	1.88
1438316--1438369	21	2.7	21	85	5	76	38	14	16	29	1.89
1438398--1438466	20	3.8	20	69	25	71	34	14	11	39	1.82
1438420--1438480	13	5.2	13	70	22	53	31	13	14	40	1.84
1438400--1438479	33	2.4	33	100	0	160	32	15	12	40	1.84
1447787--1447845	27	2.2	27	84	0	73	22	35	13	28	1.92
1447755--1448367	60	10.1	61	82	4	702	20	32	13	33	1.92
1447908--1448333	27	14.3	27	72	20	264	20	33	14	32	1.92
1447910--1448394	95	5.3	91	72	19	321	20	33	14	32	1.92
1447755--1448368	243	2.5	243	93	2	1018	20	32	13	33	1.92
1448239--1448399	34	4.9	34	71	15	142	18	33	13	34	1.90
1448501--1448831	39	7.8	39	72	16	239	25	27	19	26	1.99
1448453--1448883	87	5.0	87	95	0	763	24	27	20	27	1.99
1448801--1449028	49	4.6	49	80	5	199	24	25	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1448848--1449123	101	2.8	100	79	5	274	25	25	16	32	1.96
1453507--1453540	16	2.2	15	89	5	50	17	0	2	79	0.86
1454434--1454498	21	2.9	22	81	6	60	12	21	30	35	1.90
1454434--1454488	24	2.3	24	93	0	92	10	23	30	34	1.89
1454458--1454503	21	2.2	21	84	0	56	15	21	30	32	1.94
1454493--1454582	31	2.9	31	85	1	110	27	20	33	18	1.96
1457806--1457861	20	2.8	20	83	5	69	39	12	14	33	1.83
1457883--1457934	13	3.5	13	73	26	50	34	19	13	32	1.90
1457891--1457953	19	3.6	19	76	24	84	34	19	12	33	1.89
1457883--1457953	32	2.2	32	100	0	142	35	19	12	32	1.90
1458778--1458844	37	1.9	35	88	11	102	29	25	11	32	1.92
1459302--1459327	13	2.0	13	100	0	52	30	15	15	38	1.88
1459366--1459441	21	3.7	21	80	3	100	28	17	11	42	1.84
1459387--1459459	20	3.6	20	81	3	101	31	19	13	35	1.91
1459366--1459459	41	2.3	41	98	0	179	29	18	12	39	1.88
1460095--1460136	21	2.0	21	100	0	84	52	19	4	23	1.65
1461267--1461291	13	1.9	13	100	0	50	32	16	16	36	1.90
1461853--1461899	23	2.0	24	84	12	62	61	19	4	14	1.49
1462783--1462942	84	1.9	84	82	7	200	25	18	4	51	1.65
1464473--1464539	37	1.9	35	88	11	102	29	25	11	32	1.92
1464993--1465018	13	2.0	13	100	0	52	30	15	15	38	1.88
1465057--1465132	21	3.7	21	80	3	100	28	17	11	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465078--1465150	20	3.6	20	81	3	101	31	19	13	35	1.91
1465057--1465150	41	2.3	41	98	0	179	29	18	12	39	1.88
1465722--1466232	101	5.4	98	84	5	557	31	17	25	26	1.97
1465722--1466232	49	10.8	49	74	12	395	31	17	25	26	1.97
1465968--1466232	87	3.0	86	85	5	352	30	18	24	26	1.98
1466342--1466422	32	2.5	32	84	11	94	38	12	29	19	1.89
1466341--1466555	27	6.8	32	76	18	141	35	12	31	20	1.90
1466341--1466565	33	7.2	32	76	18	163	34	12	31	21	1.90
1466417--1466565	33	4.7	33	82	13	170	34	12	32	20	1.90
1466341--1466570	94	2.5	91	84	9	286	33	12	31	22	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52