genome.fa.s56.2.7.7.80.10.50.1000.8.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: Scaffold56
Parameters: 2 7 7 80 10 50 1000
Length:  1793205

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1274 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)
1259848--1261059	177	6.8	178	83	8	1308	28	19	25	26	1.99
1259851--1261025	238	5.0	237	84	6	1428	28	19	25	26	1.99
1264082--1264891	421	1.9	421	98	0	1584	29	21	18	30	1.97
1274923--1275232	79	3.9	77	80	7	243	34	13	23	27	1.93
1274977--1275235	79	3.3	79	79	6	265	34	14	23	27	1.94
1277758--1277787	13	2.3	13	94	0	51	36	13	16	33	1.88
1277769--1277824	20	2.8	20	94	0	103	44	14	14	26	1.83
1278896--1279109	46	4.7	46	80	5	229	50	7	4	36	1.52
1278924--1279109	92	2.0	90	87	2	264	50	9	4	36	1.54
1279041--1279182	74	1.9	74	84	8	191	50	6	9	33	1.61
1279327--1279357	15	2.1	15	100	0	62	45	22	0	32	1.53
1280205--1280330	16	7.8	16	67	23	52	39	1	0	57	1.14
1280264--1280372	35	3.1	35	79	13	127	39	1	0	58	1.09
1280264--1280321	16	3.0	21	69	25	65	41	1	0	56	1.09
1280231--1280372	70	2.0	69	83	14	177	39	2	0	57	1.15
1280262--1280383	36	3.5	34	73	20	108	40	1	0	58	1.08
1283494--1283538	21	2.1	21	91	0	72	35	15	4	44	1.67
1284127--1284307	44	4.1	44	77	10	181	49	7	4	38	1.52
1285383--1285453	21	3.4	22	74	24	57	29	0	2	67	1.05
1285441--1285507	29	2.3	30	80	12	77	43	0	1	55	1.09
1285485--1285537	21	2.3	24	84	12	67	39	0	1	58	1.09
1285498--1285544	25	2.0	23	83	8	58	40	2	2	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291282--1291334	21	2.6	21	84	3	63	32	13	13	41	1.82
1295068--1295362	80	3.7	78	82	4	349	28	21	12	38	1.89
1296525--1296641	60	2.0	60	84	3	155	27	9	14	48	1.74
1296599--1296735	58	2.3	59	82	5	161	29	8	14	46	1.75
1296586--1296747	58	2.8	56	76	11	148	29	9	13	47	1.75
1300056--1300088	2	16.5	2	100	0	66	48	0	0	51	1.00
1301694--1301741	16	3.1	16	82	8	55	54	0	2	43	1.12
1301690--1301736	17	2.6	17	80	12	51	57	0	2	40	1.11
1305917--1305963	20	2.4	20	82	3	60	19	2	2	76	0.99
1307878--1307924	23	2.0	23	83	8	58	27	12	8	51	1.69
1308314--1308366	24	2.2	24	89	0	79	28	24	7	39	1.82
1308346--1308377	10	3.2	10	95	0	55	25	28	6	40	1.79
1308321--1308367	24	2.0	24	95	0	85	27	23	6	42	1.78
1310487--1310530	21	2.1	21	91	0	70	65	0	13	20	1.26
1310487--1310543	21	2.7	21	86	0	60	64	0	17	17	1.29
1312899--1312940	20	2.1	20	95	0	75	19	11	14	54	1.70
1313100--1313136	18	2.1	18	94	0	65	62	0	24	13	1.31
1313917--1313955	20	1.9	20	89	5	60	38	23	15	23	1.92
1314111--1314135	10	2.5	10	100	0	50	20	28	8	44	1.79
1314217--1314263	20	2.3	21	73	23	55	34	12	21	31	1.91
1315113--1315165	24	2.3	22	75	18	54	39	1	5	52	1.36
1318336--1318408	20	3.7	19	83	7	76	39	17	13	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1318336--1318389	19	2.8	20	85	2	74	38	18	12	29	1.88
1320721--1320770	21	2.4	21	83	9	59	48	0	20	32	1.50
1320728--1320770	21	2.0	22	86	4	61	51	0	20	27	1.48
1321900--1321926	13	2.1	13	100	0	54	29	14	14	40	1.86
1321976--1322042	33	2.0	33	85	5	91	34	13	16	35	1.88
1324935--1324959	13	1.9	13	100	0	50	32	16	16	36	1.90
1324947--1324999	20	2.6	21	84	3	72	39	15	16	28	1.89
1325060--1325098	13	3.0	13	100	0	78	30	15	15	38	1.88
1331249--1331289	13	3.0	13	89	7	55	34	14	17	34	1.90
1331420--1331460	22	2.0	20	86	13	57	31	21	4	41	1.74
1331722--1331773	20	2.4	21	84	9	61	21	50	25	3	1.65
1333148--1333192	22	2.0	22	87	8	65	37	0	26	35	1.57
1333748--1333772	13	1.9	13	100	0	50	32	16	16	36	1.90
1333760--1333812	20	2.6	21	84	3	72	39	15	16	28	1.89
1335475--1335684	107	2.0	107	98	0	402	38	12	13	35	1.83
1347127--1347191	33	2.0	33	87	6	96	35	15	12	36	1.85
1349955--1349985	3	10.3	3	92	0	53	29	32	0	38	1.57
1350778--1350903	42	3.0	42	100	0	252	26	14	23	35	1.93
1351748--1351793	13	3.5	13	93	0	74	47	13	15	23	1.80
1356191--1356253	32	2.0	32	84	12	85	44	6	15	33	1.72
1361307--1361369	32	2.0	32	87	0	90	34	6	22	36	1.80
1361855--1361896	22	2.0	22	86	13	61	33	2	30	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364716--1364778	32	2.0	32	90	0	99	36	6	20	36	1.78
1367293--1367329	19	1.9	19	94	0	65	35	18	32	13	1.90
1367561--1367734	46	3.8	46	80	9	207	51	8	4	36	1.52
1367505--1367734	92	2.5	90	77	10	247	50	8	4	36	1.53
1367666--1367807	74	1.9	74	83	11	184	51	6	9	32	1.60
1368898--1368955	16	3.0	21	65	25	56	39	1	1	56	1.19
1371963--1371993	5	6.0	5	96	3	53	41	0	0	58	0.98
1371959--1371993	15	2.3	16	85	14	56	45	0	0	54	0.99
1373443--1373677	39	6.1	39	76	7	176	46	14	8	30	1.75
1373482--1373634	77	2.0	78	82	6	186	45	14	8	32	1.75
1373539--1373678	38	3.6	39	80	8	144	45	12	10	30	1.77
1373539--1373701	38	4.2	39	75	10	111	44	14	9	31	1.77
1373703--1373783	38	2.1	38	81	6	92	44	16	11	28	1.81
1374860--1374884	13	1.9	13	100	0	50	36	16	16	32	1.90
1374948--1374975	13	2.2	13	100	0	56	28	14	17	39	1.89
1374981--1375101	52	2.3	52	94	0	206	36	18	16	28	1.92
1378202--1378248	23	2.0	24	87	4	69	29	4	2	63	1.25
1379636--1379919	59	4.8	58	78	9	249	30	12	13	44	1.80
1379645--1379928	117	2.4	118	80	8	312	29	12	13	44	1.80
1379886--1380029	58	2.5	59	79	4	139	29	11	14	45	1.79
1381431--1381459	2	14.5	2	100	0	58	51	0	0	48	1.00
1381459--1381489	2	15.5	2	100	0	62	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382097--1382248	74	2.1	74	100	0	304	48	7	15	27	1.73
1384845--1384982	68	2.0	70	87	4	199	39	8	3	48	1.52
1384964--1384992	2	14.5	2	100	0	58	51	0	0	48	1.00
1387109--1387146	17	2.2	18	85	4	51	36	0	5	57	1.21
1387413--1387507	16	5.8	16	70	4	64	37	5	0	56	1.22
1387472--1387500	10	2.7	11	89	10	51	37	0	0	62	0.96
1387724--1387788	32	2.0	31	82	5	76	52	9	6	32	1.58
1387815--1387857	21	2.0	22	81	4	52	60	2	6	30	1.35
1388098--1388202	52	2.0	53	87	5	151	51	9	4	34	1.56
1388159--1388232	36	2.1	36	82	10	89	54	6	5	33	1.50
1388709--1388748	2	20.0	2	89	0	62	47	2	0	50	1.14
1389767--1389811	21	2.2	21	84	4	56	53	0	0	46	1.00
1390706--1390735	15	2.0	15	93	0	51	70	0	23	6	1.11
1391095--1391138	4	11.0	4	95	0	79	25	22	0	52	1.48
1392336--1392411	31	2.5	31	78	8	82	61	9	3	25	1.43
1394450--1394484	2	17.5	2	100	0	70	48	0	0	51	1.00
1398081--1398140	20	3.0	21	82	4	61	35	15	10	40	1.80
1398198--1398244	20	2.4	20	89	3	69	42	17	14	25	1.87
1398195--1398244	19	2.6	19	87	3	73	40	16	16	28	1.89
1398781--1398851	21	3.2	21	67	21	54	29	22	4	43	1.72
1400371--1400419	13	3.8	13	80	0	62	34	14	18	32	1.91
1406284--1406326	20	2.0	22	86	8	63	16	11	23	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1407047--1407082	18	2.0	18	94	0	63	36	11	8	44	1.70
1408777--1408843	31	2.2	31	84	10	84	49	1	19	29	1.57
1408932--1408968	13	2.8	13	95	0	65	32	16	18	32	1.93
1415237--1415261	13	1.9	13	100	0	50	32	16	16	36	1.90
1415272--1415312	20	2.0	22	90	9	68	17	17	19	46	1.85
1417303--1417494	68	2.8	67	80	3	204	41	21	12	25	1.88
1417295--1417547	68	3.7	68	77	1	202	39	20	12	27	1.89
1417958--1418077	38	3.1	39	84	4	127	46	17	5	30	1.69
1418055--1418251	39	5.1	39	69	15	113	45	17	11	24	1.82
1419772--1419809	7	4.9	8	93	6	53	84	0	15	0	0.63

Tables:   1   2   3   4   5   6   7   8   9   10   11