genome.fa.s179.2.7.7.80.10.50.1000.11.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: Scaffold179
Parameters: 2 7 7 80 10 50 1000
Length:  2991183

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

This is table  11  of  18  ( 2159 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)
1362801--1363588	363	2.1	366	92	3	1316	25	29	20	25	1.99
1364403--1364567	50	3.3	50	93	0	285	43	14	27	15	1.85
1366119--1366244	53	2.5	51	82	12	143	27	26	15	30	1.95
1366173--1366471	79	3.8	79	94	0	492	26	24	16	32	1.96
1370839--1370912	20	3.8	20	75	8	80	39	12	13	35	1.82
1373559--1373599	21	1.9	20	85	14	55	39	9	7	43	1.65
1374816--1374845	12	2.5	12	94	0	51	46	23	13	16	1.82
1376558--1376600	21	2.1	20	82	4	50	37	11	18	32	1.87
1382210--1382273	20	3.6	19	68	27	59	35	14	17	32	1.89
1382210--1382273	33	1.9	33	93	0	110	35	14	17	32	1.89
1382370--1382410	20	2.0	21	90	9	66	36	9	7	46	1.65
1385516--1385555	19	2.0	20	85	9	55	40	20	22	17	1.92
1386444--1386663	52	4.3	52	83	5	261	45	12	13	29	1.80
1386740--1386793	20	2.7	20	88	2	72	31	16	11	40	1.84
1391362--1391427	35	1.9	35	93	3	116	30	24	13	31	1.94
1391854--1391903	20	2.5	20	87	3	75	32	18	14	36	1.90
1394597--1394643	21	2.3	20	82	10	51	36	17	4	42	1.68
1396871--1396937	20	3.7	20	70	25	76	26	13	16	43	1.85
1396890--1396949	13	5.1	13	69	22	51	28	11	18	41	1.85
1396871--1396949	33	2.4	33	97	0	149	27	12	17	41	1.86
1396934--1396989	20	2.9	19	81	5	67	30	12	16	41	1.85
1398095--1398216	63	1.9	63	85	6	167	31	16	14	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401295--1401349	20	2.7	20	82	2	65	47	12	10	29	1.76
1402071--1402380	61	5.2	60	71	12	196	38	12	24	24	1.90
1402340--1402477	52	2.7	52	78	4	152	39	15	21	23	1.92
1402167--1402427	113	2.3	112	82	3	319	38	13	23	24	1.91
1402551--1402827	32	8.6	32	79	7	199	21	16	29	32	1.95
1402547--1402756	31	6.7	31	83	9	225	17	17	31	33	1.93
1402547--1402755	63	3.3	62	82	10	248	17	17	31	33	1.93
1402741--1402824	36	2.5	33	83	11	98	27	16	23	32	1.96
1402545--1402794	63	4.0	61	78	11	245	20	16	30	33	1.95
1402756--1402834	36	2.2	37	93	2	133	35	15	22	26	1.94
1402920--1402978	28	2.1	28	83	0	73	23	15	28	32	1.95
1404622--1404740	51	2.3	50	83	9	143	32	10	21	35	1.87
1404470--1404673	79	2.6	79	88	1	311	33	12	24	30	1.92
1407327--1407385	20	2.9	21	80	7	68	38	10	16	33	1.83
1407366--1407427	13	5.2	13	76	21	73	40	16	17	25	1.90
1407347--1407427	33	2.5	33	91	0	126	39	13	18	28	1.89
1407379--1407416	20	1.9	20	100	0	76	39	15	18	26	1.91
1408545--1408589	23	1.9	24	81	4	56	8	4	11	75	1.17
1420294--1420340	16	3.1	15	82	8	51	70	4	0	25	1.05
1422954--1423007	20	2.7	20	82	5	65	44	9	16	29	1.79
1435901--1435955	20	2.8	20	82	0	74	40	14	10	34	1.81
1435864--1436037	71	2.5	71	91	0	276	43	11	14	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435976--1436026	20	2.5	20	87	0	66	39	13	11	35	1.82
1438247--1438296	3	16.7	3	91	0	82	38	0	32	30	1.58
1439300--1439325	13	2.0	13	100	0	52	30	23	15	30	1.95
1439408--1439463	21	2.6	22	94	5	105	37	10	25	26	1.88
1439451--1439481	10	3.1	10	90	0	53	41	6	29	22	1.78
1439505--1439641	53	2.6	53	92	1	229	27	16	18	38	1.91
1439611--1439681	20	3.5	20	73	17	67	28	12	15	43	1.83
1439721--1439761	21	2.0	21	85	9	57	39	9	12	39	1.76
1444992--1445017	13	2.0	13	100	0	52	30	23	15	30	1.95
1445100--1445155	21	2.6	22	94	5	105	37	10	25	26	1.88
1445143--1445173	10	3.1	10	90	0	53	41	6	29	22	1.78
1445197--1445333	53	2.6	53	92	1	229	27	16	18	38	1.91
1445303--1445373	20	3.5	20	73	17	67	28	12	15	43	1.83
1445413--1445453	21	2.0	21	85	9	57	39	9	12	39	1.76
1449857--1449892	13	2.8	13	95	0	63	36	16	11	36	1.84
1450908--1450961	23	2.3	23	96	0	99	22	25	5	46	1.73
1452794--1452890	30	3.6	29	70	28	95	27	19	11	41	1.86
1452763--1452908	50	2.9	51	91	2	240	28	17	10	43	1.83
1465718--1465764	8	5.6	8	80	9	58	82	14	2	0	0.75
1465718--1465764	18	2.8	17	81	9	60	82	14	2	0	0.75
1466965--1467501	28	18.5	28	81	7	531	30	29	16	23	1.96
1466959--1467501	57	9.4	57	80	9	530	30	30	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467246--1467558	32	10.3	32	77	6	133	30	29	16	23	1.96
1468661--1468735	20	3.8	20	80	0	87	32	13	13	41	1.83
1469475--1469685	108	2.0	108	98	0	404	19	16	19	44	1.87
1473186--1473224	20	2.0	20	89	0	60	30	10	15	43	1.80
1473186--1473255	33	2.1	33	84	5	88	34	11	17	37	1.85
1475090--1475114	9	2.8	9	100	0	50	12	20	0	68	1.21
1476767--1476791	13	1.9	13	100	0	50	24	16	20	40	1.91
1476823--1476875	20	2.7	19	85	8	72	32	15	16	35	1.90
1479898--1480098	81	2.5	79	81	3	197	30	16	27	24	1.97
1480053--1480124	28	2.6	28	86	0	90	25	19	33	22	1.97
1480146--1480282	52	2.6	52	80	6	152	33	13	24	28	1.93
1480256--1480335	27	2.9	28	81	10	94	27	20	30	22	1.98
1479999--1480391	107	3.7	105	71	11	296	31	14	26	27	1.95
1480046--1480451	212	1.9	212	88	3	611	31	13	26	28	1.94
1482824--1482849	13	2.0	13	100	0	52	38	15	15	30	1.88
1482889--1482956	19	3.9	18	76	23	83	38	14	11	35	1.83
1482911--1482935	13	1.9	13	100	0	50	32	16	16	36	1.90
1482892--1482954	32	2.0	32	96	0	117	36	15	12	34	1.86
1483723--1485082	55	23.9	55	86	8	1643	23	20	29	27	1.98
1484055--1484139	27	3.1	27	61	15	66	23	18	29	28	1.98
1483723--1485108	231	6.1	228	86	8	1752	23	19	29	27	1.98
1484690--1484827	27	5.0	27	60	16	68	21	19	29	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1484829--1484914	26	3.1	28	67	16	79	19	19	30	30	1.97
1491197--1491399	80	2.6	79	82	2	219	30	16	28	24	1.97
1491351--1491422	28	2.6	28	86	0	90	25	19	33	22	1.97
1491444--1491580	52	2.6	52	80	6	152	33	13	24	28	1.93
1491554--1491634	27	3.0	28	82	10	96	27	20	29	22	1.99
1491344--1491749	212	1.9	212	86	4	577	31	13	26	28	1.94
1494103--1494169	33	2.0	33	85	0	89	40	13	14	31	1.85
1494194--1494255	32	1.9	32	93	0	106	37	19	9	33	1.84
1494190--1494254	19	3.8	17	71	24	57	36	18	10	33	1.86
1504468--1504771	166	1.8	166	80	5	364	48	9	11	31	1.71
1505040--1505092	21	2.5	21	84	9	63	39	13	9	37	1.77
1505251--1505359	52	2.1	52	82	3	139	33	11	19	34	1.88
1505783--1505910	34	3.8	33	83	12	138	35	13	18	32	1.90
1507492--1507545	21	2.5	21	84	3	72	59	1	20	18	1.47
1510290--1510398	52	2.1	52	85	0	155	35	15	15	33	1.89
1510799--1510904	36	3.0	36	78	12	121	37	11	23	27	1.89
1510798--1510917	36	3.6	34	76	15	117	35	12	22	30	1.91
1512734--1512758	13	1.9	13	100	0	50	36	16	16	32	1.90
1512842--1512966	52	2.4	52	89	0	187	36	16	16	29	1.92
1516729--1516757	14	2.1	14	100	0	58	51	13	0	34	1.42
1518289--1518327	18	2.2	18	85	0	51	33	2	15	48	1.58
1527442--1527512	20	3.5	20	78	0	88	42	11	12	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528161--1528190	16	1.9	16	93	6	53	80	0	10	10	0.92
1528168--1528231	20	3.2	20	82	6	76	81	0	15	3	0.82
1528188--1528231	16	2.9	16	80	19	58	81	0	18	0	0.68
1529225--1529311	44	2.0	43	88	6	131	19	26	12	41	1.87
1529229--1529327	44	2.3	44	81	8	114	19	27	14	39	1.90
1529463--1530986	43	35.3	43	78	2	1178	20	27	15	37	1.92
1529397--1529544	77	1.9	77	91	0	242	18	27	14	39	1.90
1529354--1529581	120	1.9	119	84	0	303	19	28	14	38	1.90
1530974--1531478	85	5.9	85	76	5	419	16	25	15	42	1.87
1530983--1531435	170	2.7	171	77	5	477	16	26	15	42	1.87

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