genome.fa.s92.2.7.7.80.10.50.1000.11.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

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

This is table  11  of  19  ( 2187 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)
1363582--1363669	31	2.7	33	80	18	96	43	0	0	56	0.99
1363836--1363883	24	2.0	25	83	4	62	52	0	2	45	1.12
1366613--1366657	2	23.0	2	90	4	74	48	2	0	48	1.13
1367572--1367614	2	23.0	2	86	13	65	0	48	0	51	1.00
1369001--1369644	320	2.0	320	99	0	1270	36	9	12	42	1.74
1369875--1369925	18	3.1	18	69	30	58	56	3	0	39	1.18
1373905--1373954	16	3.1	16	68	21	50	52	0	2	46	1.12
1374226--1374286	31	2.0	30	84	6	79	36	6	0	57	1.25
1374368--1374398	14	2.2	14	94	0	53	41	0	0	58	0.98
1376528--1376556	13	2.1	14	93	6	51	48	0	0	51	1.00
1377815--1377847	13	2.4	14	90	5	50	33	0	0	66	0.92
1379406--1379436	16	1.9	16	93	0	53	48	3	0	48	1.17
1379444--1379500	19	2.9	19	85	12	64	40	0	0	59	0.97
1379455--1379520	30	2.3	27	76	14	69	37	0	0	62	0.96
1379433--1379501	20	3.4	20	77	16	70	37	0	1	60	1.06
1379668--1379710	16	2.7	16	75	13	52	48	20	11	18	1.79
1380733--1380788	20	3.2	17	77	18	53	46	0	1	51	1.11
1380838--1380940	53	1.9	54	84	2	136	35	21	14	28	1.93
1380427--1381157	379	1.9	378	89	0	1122	42	17	9	30	1.80
1381124--1381217	48	1.9	48	81	10	111	55	0	0	44	0.99
1381187--1381230	13	3.3	13	83	3	52	50	0	0	50	1.00
1382108--1382149	21	2.0	21	95	4	75	47	28	9	14	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1383915--1383955	19	2.0	21	86	9	59	34	0	0	65	0.93
1384326--1384382	30	1.9	30	100	0	114	33	22	19	24	1.97
1386405--1386470	5	13.0	5	76	7	62	28	0	1	69	0.97
1386725--1386782	14	4.1	14	79	16	66	37	0	0	62	0.96
1386723--1386809	28	3.1	28	80	9	99	41	0	0	58	0.98
1387623--1387687	32	2.0	34	87	6	98	35	0	4	60	1.18
1388793--1388836	2	22.0	2	100	0	88	50	0	0	50	1.00
1390174--1390210	16	2.3	16	95	0	65	10	0	27	62	1.28
1392883--1392921	2	19.5	2	89	0	60	48	0	2	48	1.15
1394727--1394783	2	28.5	2	96	0	105	49	1	0	49	1.11
1394893--1394946	12	4.3	12	79	6	54	46	0	0	53	1.00
1394944--1394991	15	3.2	14	77	13	51	70	0	2	27	0.98
1397427--1397485	22	2.7	22	81	7	66	57	0	0	42	0.98
1400055--1400098	21	2.1	21	83	8	54	38	0	2	59	1.10
1400095--1400160	32	2.1	33	83	11	84	42	0	0	57	0.98
1400068--1400115	21	2.3	21	85	7	62	39	0	0	60	0.97
1400071--1400159	14	5.7	14	70	18	52	41	0	0	58	0.98
1400491--1400527	18	2.0	20	89	10	60	51	0	2	45	1.15
1401341--1401388	16	2.9	16	81	3	60	29	0	0	70	0.87
1401343--1401400	25	2.3	25	81	0	71	34	0	0	65	0.93
1401408--1401442	16	2.2	17	90	10	56	54	0	0	45	0.99
1402527--1402575	18	2.7	18	77	0	53	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403219--1403289	9	7.1	10	73	19	51	32	0	2	64	1.08
1403243--1403283	20	2.1	19	90	4	64	29	0	2	68	1.03
1404121--1404163	15	3.0	15	83	6	54	51	0	0	48	1.00
1404166--1404202	15	2.4	16	82	13	51	59	0	0	40	0.97
1404131--1404188	24	2.5	24	72	8	57	51	0	0	48	1.00
1404844--1405197	186	1.9	186	85	5	491	53	7	2	36	1.44
1405467--1405525	11	4.9	12	76	13	59	49	0	0	50	1.00
1405478--1405542	25	2.5	26	79	20	82	52	0	0	47	1.00
1405480--1405530	24	2.2	23	82	10	59	56	0	0	43	0.99
1406439--1406477	19	2.0	20	90	10	62	61	0	0	38	0.96
1408613--1408951	58	5.8	58	74	9	214	49	10	9	30	1.68
1408613--1408694	29	2.8	31	70	15	75	50	3	10	35	1.55
1408825--1409092	58	4.6	55	77	13	188	50	11	10	27	1.71
1408670--1409091	175	2.4	173	78	8	392	50	11	9	28	1.70
1411581--1411625	19	2.4	19	82	14	58	28	0	0	71	0.87
1411599--1411702	52	2.0	53	81	12	126	48	0	0	50	1.07
1414785--1414869	45	1.9	44	83	9	111	50	1	1	47	1.16
1414977--1415068	39	2.4	38	77	15	100	44	1	1	53	1.15
1414993--1415052	19	3.1	19	75	17	61	43	0	1	55	1.10
1415491--1415539	20	2.5	20	80	6	55	42	4	4	48	1.40
1416135--1416174	21	2.0	20	85	14	55	47	0	17	35	1.48
1416135--1416174	20	2.0	21	85	14	57	47	0	17	35	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1417526--1417592	35	1.9	34	82	14	84	40	0	5	53	1.25
1417714--1417792	28	2.7	30	79	13	94	36	8	2	51	1.47
1417972--1418014	17	2.6	18	82	14	56	65	0	0	34	0.93
1418003--1418038	17	2.0	19	89	10	58	44	0	0	55	0.99
1420120--1420160	3	13.7	3	100	0	82	0	31	0	68	0.90
1426138--1426180	20	2.2	19	83	4	50	44	0	0	55	0.99
1427493--1427546	26	2.0	27	85	3	74	44	0	0	55	0.99
1431613--1431714	2	52.5	2	84	5	102	46	0	0	52	1.07
1432730--1432775	15	2.9	16	83	9	58	32	0	0	67	0.91
1433311--1433376	32	2.0	33	82	8	82	39	0	1	59	1.07
1433343--1433382	18	2.3	17	86	4	53	42	0	0	57	0.98
1433336--1433387	29	1.9	27	85	14	72	38	0	0	61	0.96
1433506--1433554	16	2.9	17	82	14	57	63	2	0	34	1.06
1434982--1435022	21	1.9	22	85	5	57	51	0	0	48	1.00
1435582--1435643	27	2.3	27	83	10	83	33	16	17	32	1.92
1435584--1435655	27	2.6	25	78	20	65	34	16	16	31	1.92
1436072--1436125	25	2.2	25	100	0	108	35	11	11	42	1.76
1437816--1438095	67	4.2	67	75	5	208	28	22	11	37	1.88
1437856--1438246	135	2.9	135	78	1	338	28	23	11	37	1.89
1438092--1438420	68	4.9	68	75	4	233	28	24	13	33	1.93
1438075--1438337	135	1.9	135	80	4	307	28	23	12	34	1.92
1439250--1439276	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439439--1439506	29	2.3	29	82	12	84	50	0	1	48	1.10
1441586--1441710	30	4.3	29	80	9	132	38	3	1	56	1.25
1441586--1441695	58	1.9	57	87	5	159	38	3	1	56	1.28
1441691--1441742	18	2.9	18	72	16	54	42	3	0	53	1.19
1442516--1442564	23	2.2	23	85	10	66	61	0	0	38	0.96
1446324--1446352	12	2.5	12	94	5	51	17	6	0	75	1.01
1446891--1446925	15	2.3	16	90	9	56	42	0	0	57	0.99
1447454--1447515	21	3.0	21	81	9	74	59	0	0	40	0.97
1447454--1447556	11	10.0	10	69	21	54	57	0	0	41	1.05
1447478--1447543	21	3.1	21	72	10	55	57	0	0	42	0.98
1449274--1449323	14	3.5	14	78	13	57	64	0	0	36	0.94
1450413--1450690	140	2.0	140	94	0	484	46	12	8	32	1.73
1456043--1456088	24	1.9	24	81	0	56	54	0	10	34	1.36
1459623--1459674	22	2.4	22	96	0	95	28	5	28	36	1.80
1459975--1460005	2	15.5	2	100	0	62	51	0	0	48	1.00
1460994--1461021	14	2.0	14	100	0	56	35	0	0	64	0.94
1461008--1461061	28	2.0	28	82	10	67	51	0	0	48	1.00
1461333--1461365	16	2.1	16	94	0	57	48	0	0	51	1.00
1461335--1461367	11	3.1	11	86	4	50	48	0	0	51	1.00
1462682--1462751	31	2.3	31	82	0	77	47	8	5	38	1.58
1462722--1462764	16	2.7	16	85	0	59	55	2	2	39	1.25
1462701--1462764	31	2.0	31	87	3	92	51	4	4	39	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1464588--1464669	41	2.0	40	86	9	114	46	0	0	53	1.00
1466003--1466076	3	24.7	3	100	0	148	33	32	0	33	1.58
1466075--1466122	3	16.0	3	100	0	96	33	0	0	66	0.92
1466834--1466877	20	2.2	20	84	11	56	72	2	6	18	1.17
1467747--1467781	2	17.5	2	87	0	52	48	2	0	48	1.16
1471143--1471189	23	2.0	23	84	8	60	51	4	0	44	1.21
1471553--1471597	2	22.5	2	100	0	90	48	0	0	51	1.00
1473406--1473473	29	2.3	30	75	14	70	57	5	4	32	1.43
1474251--1474321	37	1.9	36	83	13	92	50	0	0	49	1.00
1474637--1474664	14	2.0	14	100	0	56	64	0	0	35	0.94

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