genome.fa.s221.2.7.7.80.10.50.1000.11.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: Scaffold221
Parameters: 2 7 7 80 10 50 1000
Length:  2539808

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  ( 2279 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)
1300778--1300822	22	2.0	22	86	4	63	44	2	0	53	1.13
1300792--1300836	24	2.0	22	82	8	54	44	2	0	53	1.13
1301195--1301246	16	3.3	15	78	10	50	42	0	1	55	1.10
1305023--1305058	2	18.0	2	100	0	72	50	0	0	50	1.00
1307030--1307075	18	2.6	17	80	16	58	50	0	0	50	1.00
1307941--1308008	36	1.9	35	85	8	93	61	2	0	35	1.11
1308046--1308102	23	2.5	22	72	5	60	45	5	7	42	1.53
1309230--1309284	16	3.4	16	82	2	65	27	0	3	69	1.05
1311379--1311463	31	2.9	29	74	19	93	42	2	1	54	1.21
1311567--1311619	24	2.3	23	78	12	54	30	1	13	54	1.49
1313330--1313374	23	1.9	24	82	13	58	37	0	6	55	1.26
1313416--1313453	12	3.2	12	77	7	51	18	0	10	71	1.14
1313965--1314005	21	2.0	21	85	0	55	56	2	0	41	1.13
1315228--1315281	26	2.1	26	86	13	76	50	0	0	50	1.00
1315463--1315496	17	2.0	17	88	11	52	41	0	2	55	1.15
1315490--1315598	22	4.7	22	70	20	71	46	0	0	53	1.00
1315514--1315605	28	3.5	27	72	18	79	44	0	0	55	0.99
1315491--1315603	20	4.8	22	68	25	72	46	0	0	53	1.00
1325070--1325106	18	2.0	20	89	10	60	32	0	8	59	1.27
1325156--1325218	10	6.0	10	71	10	54	57	1	1	39	1.18
1325207--1325250	21	2.0	22	86	4	63	47	0	0	52	1.00
1325597--1325747	15	10.6	14	67	24	75	58	1	1	39	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325674--1325719	18	2.7	18	83	9	53	58	0	0	41	0.98
1325608--1325746	36	3.9	37	71	12	112	58	1	1	38	1.16
1325596--1325743	38	3.9	38	67	23	96	58	1	1	39	1.15
1325600--1325747	8	17.4	8	67	20	54	58	1	1	39	1.15
1326665--1326695	14	2.1	15	94	5	55	3	6	0	90	0.55
1327680--1327728	11	4.6	11	82	7	66	34	0	0	65	0.93
1327674--1327728	21	2.5	22	85	8	76	34	0	0	65	0.93
1329312--1329348	17	2.1	18	90	5	58	78	8	2	10	1.06
1329313--1329348	16	2.1	18	90	10	58	77	8	2	11	1.08
1331596--1331634	17	2.4	16	82	4	51	74	0	0	25	0.82
1331841--1331939	29	3.4	28	74	19	85	43	1	0	55	1.06
1331856--1331895	17	2.4	17	83	12	55	47	0	0	52	1.00
1332206--1332258	22	2.4	22	87	6	72	39	0	1	58	1.09
1332228--1332286	15	3.8	16	78	10	68	40	0	0	59	0.97
1332410--1332454	16	2.8	16	93	0	72	33	4	6	55	1.46
1332895--1332953	27	2.1	28	84	3	75	47	6	3	42	1.46
1334349--1334373	13	1.9	13	100	0	50	28	8	16	48	1.74
1335544--1335569	2	13.0	2	100	0	52	50	0	0	50	1.00
1335910--1335959	15	3.2	16	77	8	50	28	0	0	72	0.86
1337666--1337705	21	2.0	20	85	5	53	42	2	0	55	1.13
1338209--1338300	35	2.6	35	76	11	80	55	0	3	41	1.16
1338287--1338334	15	3.4	14	80	16	55	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1338276--1338319	15	2.9	15	83	6	54	65	0	0	34	0.93
1338287--1338334	14	3.5	13	85	8	51	60	0	0	39	0.97
1339099--1339158	29	2.1	29	81	6	68	56	0	0	43	0.99
1339078--1339174	48	2.0	50	84	8	128	53	0	1	45	1.07
1339281--1339310	2	15.0	2	100	0	60	50	0	0	50	1.00
1339869--1339950	25	3.2	23	70	21	56	37	0	0	62	0.96
1339885--1339927	14	3.0	14	86	6	68	39	0	0	60	0.97
1339867--1339918	15	3.6	14	83	16	63	32	0	0	67	0.91
1339892--1339982	38	2.4	39	81	10	107	41	0	0	58	0.98
1339943--1340005	16	4.2	15	71	16	51	49	0	1	49	1.10
1340550--1340602	3	17.7	3	84	0	52	43	1	28	26	1.65
1341547--1341608	30	2.1	30	90	0	97	32	25	6	35	1.82
1344571--1344635	18	3.5	18	74	18	53	60	0	1	38	1.07
1344589--1344656	30	2.2	30	82	12	77	55	0	2	41	1.15
1344560--1344659	48	2.0	50	84	7	134	57	0	3	40	1.14
1344972--1345013	22	1.9	22	90	9	68	64	0	0	35	0.94
1350150--1350239	29	3.0	29	78	9	101	46	5	12	35	1.65
1350151--1350236	31	2.8	30	81	6	95	48	5	10	34	1.61
1355852--1355889	18	1.9	19	85	15	51	57	0	2	39	1.12
1356225--1356283	27	2.1	27	84	9	73	62	1	0	35	1.05
1356245--1356299	11	4.4	12	75	22	51	54	0	0	45	0.99
1356273--1356332	27	2.2	28	87	3	86	48	1	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356286--1356339	27	1.9	28	92	7	92	46	1	0	51	1.11
1356537--1356573	19	2.0	18	89	5	56	45	0	0	54	1.00
1356533--1356600	26	3.0	23	75	21	72	42	0	0	57	0.98
1356647--1356688	17	2.5	17	88	3	59	64	2	0	33	1.07
1358328--1358358	15	2.0	16	93	6	55	29	0	0	70	0.87
1359221--1359250	13	2.3	13	100	0	60	43	0	0	56	0.99
1361423--1361466	20	2.2	19	88	8	61	68	2	0	29	1.02
1362221--1362284	27	2.3	29	85	15	84	42	0	0	57	0.98
1363905--1363949	3	15.0	3	95	0	81	0	2	33	64	1.06
1364068--1364120	28	2.0	28	85	7	74	35	0	1	62	1.06
1364098--1364155	19	3.1	19	72	20	50	46	0	0	53	1.00
1364435--1364474	20	2.0	20	86	13	57	50	0	0	50	1.00
1364407--1364469	23	2.8	22	66	7	54	41	1	0	57	1.08
1364960--1364989	2	15.0	2	92	0	51	50	3	0	46	1.18
1365020--1365103	11	7.5	11	70	15	55	71	1	0	27	0.93
1365023--1365103	35	2.4	35	93	4	139	71	1	0	27	0.93
1365041--1365100	24	2.5	24	81	7	70	76	0	0	23	0.78
1365091--1365178	25	3.4	24	82	13	104	54	1	2	42	1.20
1366055--1366106	2	27.0	2	78	21	58	48	0	3	48	1.20
1366063--1366112	17	2.9	17	100	0	100	46	0	6	48	1.27
1367148--1367223	39	1.9	39	86	0	107	30	14	23	31	1.94
1373566--1373593	2	14.0	2	100	0	56	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376803--1377023	34	6.5	33	84	5	271	40	25	7	26	1.81
1376803--1377023	102	2.2	101	87	1	334	40	25	7	26	1.81
1381428--1381646	34	6.5	33	82	9	253	41	26	7	25	1.81
1381428--1381646	102	2.2	101	88	1	339	41	26	7	25	1.81
1382686--1382750	34	1.9	34	81	9	80	50	1	0	47	1.10
1382729--1382771	19	2.3	19	87	0	59	48	0	0	51	1.00
1383405--1383449	17	2.6	17	80	13	65	4	4	8	82	0.94
1386427--1386478	13	4.0	13	78	14	54	40	1	1	55	1.22
1386485--1386519	17	2.1	17	94	0	61	54	14	0	31	1.40
1386705--1386745	22	1.9	22	90	5	66	58	0	0	41	0.98
1387066--1387163	11	9.1	11	71	19	64	38	2	0	59	1.09
1387079--1387161	16	5.2	17	66	25	56	39	0	0	60	0.97
1389767--1389795	2	14.5	2	100	0	58	51	0	0	48	1.00
1391554--1391610	17	3.5	17	76	23	59	38	3	1	56	1.27
1392628--1392720	27	3.4	28	76	13	79	58	0	0	41	0.98
1392657--1392701	20	2.3	20	82	14	51	53	0	0	46	1.00
1392946--1393007	14	4.4	13	75	18	54	69	1	0	29	0.98
1392946--1392996	15	3.4	15	80	20	54	70	1	0	27	0.98
1392946--1393007	28	2.2	28	85	8	81	69	1	0	29	0.98
1392942--1392999	19	3.1	18	76	18	55	68	1	0	29	0.99
1395798--1395857	27	2.2	26	80	14	68	45	0	0	55	0.99
1395978--1396020	10	4.3	9	78	21	50	32	2	2	62	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395981--1396020	21	2.0	20	90	5	62	32	2	2	62	1.22
1398768--1398802	14	2.5	14	85	0	52	65	0	0	34	0.93
1399447--1399551	51	2.0	52	90	1	167	52	4	8	34	1.53
1399756--1399796	18	2.3	18	80	20	50	41	0	0	58	0.98
1399731--1399797	15	4.1	16	74	18	59	44	0	0	55	0.99
1402328--1402366	21	1.9	20	84	5	51	46	0	0	53	1.00
1402790--1402823	12	3.1	11	88	12	52	91	8	0	0	0.43
1402791--1402829	20	2.0	20	89	0	60	89	7	0	2	0.56
1403930--1403986	28	2.1	27	80	9	62	49	0	0	50	1.00
1404369--1404423	22	2.4	23	88	8	78	36	0	0	63	0.95

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