genome.fa.s106.2.7.7.80.10.50.1000.9.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  9  of  27  ( 3135 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)
1290428--1290521	47	2.0	48	91	2	154	50	12	17	20	1.78
1292203--1292241	3	12.7	3	94	5	69	66	0	0	33	0.92
1296455--1296494	20	2.0	20	90	9	64	40	0	0	60	0.97
1296780--1296807	2	14.0	2	100	0	56	50	0	0	50	1.00
1297148--1297183	10	3.6	10	84	0	54	33	0	0	66	0.92
1297625--1297666	18	2.3	18	88	8	59	61	0	0	38	0.96
1297633--1297683	17	2.9	17	82	8	50	62	0	0	37	0.95
1299032--1299234	103	2.0	104	87	1	291	42	5	7	44	1.56
1300180--1300214	7	4.9	7	89	3	52	48	0	0	51	1.00
1300180--1300226	14	3.1	15	81	12	60	51	0	0	48	1.00
1300882--1301037	78	2.0	76	92	2	258	41	5	2	50	1.40
1301087--1301167	22	3.5	22	72	16	56	38	1	1	59	1.13
1304368--1304435	29	2.3	31	82	10	79	50	1	1	47	1.19
1304397--1304453	5	11.4	5	80	12	55	43	0	0	56	0.99
1304898--1304996	25	4.0	25	66	13	62	43	4	1	51	1.27
1305860--1305961	50	2.0	51	81	9	120	51	0	0	48	1.00
1306244--1306333	46	1.9	46	82	10	112	40	10	2	47	1.49
1306723--1306765	13	3.1	14	83	10	52	46	0	0	53	1.00
1308918--1308974	29	2.0	29	86	6	80	50	0	0	49	1.00
1308956--1308989	11	3.2	11	91	4	52	44	0	0	55	0.99
1310306--1310362	29	2.1	25	87	12	78	38	1	0	59	1.08
1310322--1310376	19	2.8	19	81	8	58	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311126--1311166	12	3.5	12	83	6	57	53	0	0	46	1.00
1311205--1311243	21	1.9	20	84	5	51	56	7	0	35	1.28
1314135--1314168	18	1.9	17	88	5	50	32	0	0	67	0.91
1316606--1316652	17	2.8	17	74	3	51	55	2	0	42	1.12
1318165--1318234	32	2.1	34	87	10	101	55	1	0	42	1.08
1330343--1330375	14	2.4	14	90	10	50	72	0	0	27	0.85
1330389--1330787	74	5.5	72	82	7	368	30	1	14	53	1.49
1330939--1330982	23	2.0	22	86	4	61	43	2	0	54	1.12
1331168--1331200	17	1.9	17	88	11	50	45	0	6	48	1.27
1331275--1331317	12	3.5	12	80	3	50	69	2	0	27	1.00
1331279--1331327	21	2.3	21	80	16	57	65	2	0	32	1.04
1332156--1332181	3	8.7	3	100	0	52	34	0	0	65	0.93
1337940--1337993	23	2.4	22	84	3	63	64	1	3	29	1.21
1337954--1337999	22	2.0	23	83	8	58	60	4	8	26	1.44
1338207--1338246	15	2.9	13	82	13	53	62	0	0	37	0.95
1339375--1339403	15	1.9	15	100	0	58	72	6	20	0	1.07
1340760--1340785	1	26.0	1	100	0	52	0	0	100	0	0.00
1346069--1346208	38	3.7	40	71	21	113	56	0	1	41	1.13
1346151--1346216	19	3.5	19	78	12	73	60	0	0	39	0.97
1346151--1346214	11	5.2	12	71	15	51	59	0	0	40	0.97
1346134--1346216	19	4.2	19	73	16	62	59	1	0	39	1.05
1346138--1346215	38	2.0	41	87	7	117	56	1	0	42	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347134--1347186	22	2.5	22	87	9	74	49	0	3	47	1.19
1347164--1347217	19	2.8	18	72	10	54	40	0	3	55	1.17
1349105--1349143	20	2.0	20	90	10	62	41	12	0	46	1.42
1356008--1356041	2	17.0	2	100	0	68	50	0	0	50	1.00
1360438--1360509	19	3.8	19	78	7	85	43	0	0	56	0.99
1360756--1360819	19	3.2	20	78	8	69	59	0	1	39	1.07
1360977--1361027	14	3.6	14	76	12	59	62	0	0	37	0.95
1360965--1361027	29	2.1	30	85	8	85	58	0	0	41	0.98
1361242--1361287	21	2.1	22	84	11	60	39	4	0	56	1.19
1361640--1361708	30	2.3	29	87	5	93	57	7	8	26	1.54
1365007--1365033	2	13.5	2	100	0	54	51	0	0	48	1.00
1370777--1370875	44	2.2	44	82	10	112	53	1	1	44	1.14
1373480--1373537	20	2.9	19	79	18	57	24	1	1	72	1.03
1373647--1373691	13	3.9	12	80	13	51	51	0	0	48	1.00
1373835--1373882	21	2.4	20	78	18	55	45	0	0	54	0.99
1374527--1374572	7	6.6	7	94	0	83	41	17	0	41	1.49
1374623--1374692	29	2.4	29	80	4	79	41	0	1	57	1.08
1375248--1375318	29	2.5	29	68	13	67	52	0	4	43	1.20
1382949--1382977	8	3.6	8	100	0	58	37	0	0	62	0.96
1383004--1383085	29	2.8	29	98	0	155	45	3	19	31	1.68
1383535--1383561	2	13.5	2	100	0	54	51	0	48	0	1.00
1384532--1384610	36	2.3	34	80	8	88	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385410--1385438	14	2.1	14	93	6	51	48	0	0	51	1.00
1385917--1385955	2	20.0	2	94	5	71	51	0	0	48	1.00
1388054--1388161	29	3.7	30	76	6	114	37	11	1	49	1.49
1387898--1388429	261	2.0	263	87	3	759	37	10	4	47	1.59
1388328--1388450	29	4.2	30	74	3	97	37	12	3	47	1.57
1388361--1388439	30	2.7	29	76	2	95	35	15	2	46	1.59
1394059--1394122	20	3.2	20	82	2	67	42	25	0	32	1.55
1395384--1395426	4	10.8	4	84	0	50	46	6	2	44	1.43
1395385--1395426	16	2.6	16	92	0	66	47	7	2	42	1.43
1396257--1396295	14	2.7	15	88	7	55	64	0	2	33	1.08
1396695--1396762	18	3.6	18	83	13	82	63	0	0	36	0.95
1396711--1396773	21	3.2	20	78	17	78	58	0	0	41	0.98
1396695--1396770	39	1.9	40	86	7	111	60	0	0	39	0.97
1396894--1396940	17	2.8	17	80	0	58	38	0	0	61	0.96
1397454--1397510	18	3.1	18	85	12	55	61	1	0	36	1.07
1397461--1397510	18	2.7	17	87	12	64	60	2	0	38	1.09
1397672--1397703	17	1.9	17	93	6	57	46	0	0	53	1.00
1397664--1397711	17	2.7	18	75	18	55	54	2	0	43	1.12
1397860--1397923	12	5.3	12	75	17	53	75	1	0	23	0.90
1397872--1397927	21	2.4	23	85	11	71	76	1	0	21	0.87
1397894--1397934	18	2.3	18	91	8	66	73	4	0	21	1.02
1397907--1398005	49	2.0	49	81	11	114	59	4	0	36	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397986--1398015	12	2.5	12	100	0	60	63	0	0	36	0.95
1398510--1398539	2	15.0	2	100	0	60	0	50	0	50	1.00
1399426--1399454	2	14.5	2	100	0	58	51	48	0	0	1.00
1401115--1401144	2	15.0	2	100	0	60	50	0	0	50	1.00
1403912--1403939	2	14.0	2	100	0	56	50	0	0	50	1.00
1407371--1407400	2	15.0	2	92	0	51	53	0	0	46	1.00
1413646--1413684	15	2.6	15	87	0	51	35	0	0	64	0.94
1413781--1413826	19	2.4	18	85	7	65	28	0	2	69	1.00
1414957--1415022	20	3.2	20	70	10	62	54	1	0	43	1.09
1416473--1416749	141	2.0	140	93	2	477	42	6	4	46	1.50
1417616--1417655	17	2.4	17	82	0	53	37	0	0	62	0.95
1417881--1417929	14	3.4	14	88	2	71	38	0	4	57	1.18
1418661--1418798	67	2.1	66	82	6	172	46	8	10	34	1.70
1418800--1418981	92	2.0	92	83	6	235	43	7	14	34	1.74
1419667--1419701	4	9.0	4	87	6	54	2	22	0	74	0.95
1419667--1419695	15	1.9	15	100	0	58	0	24	0	75	0.80
1419796--1420003	74	2.9	72	81	8	235	55	9	1	33	1.41
1420302--1420445	73	1.9	75	84	8	197	45	2	1	50	1.24
1420551--1420575	12	2.1	12	100	0	50	56	0	0	44	0.99
1420795--1420830	14	2.5	15	90	4	56	33	0	2	63	1.08
1426894--1426961	34	2.0	34	97	0	127	13	14	8	63	1.52
1429681--1429724	3	14.7	3	100	0	88	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430028--1430103	38	2.0	38	87	5	109	35	9	18	36	1.83
1430637--1430681	2	23.0	2	95	4	83	51	0	0	48	1.00
1430681--1430719	2	19.5	2	100	0	78	51	0	48	0	1.00
1434274--1434317	23	1.9	23	86	9	63	54	0	0	45	0.99
1435653--1435704	16	3.1	17	76	18	56	30	0	0	69	0.89
1438298--1438337	18	2.4	16	91	8	62	47	0	0	52	1.00
1438306--1438374	10	7.1	10	76	11	54	59	0	0	40	0.97
1438319--1438362	21	2.1	21	82	0	52	59	0	0	40	0.98
1438935--1438996	28	2.2	29	85	8	83	51	0	1	46	1.10
1441530--1441571	22	1.9	22	90	9	68	57	0	0	42	0.99

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