oyster.v9_M.fa.s9.2.7.7.80.10.50.500.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold337
Parameters: 2 7 7 80 10 50 500
Length:  1638316

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 594 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)
1220109--1220163	4	13.8	4	88	0	74	69	3	1	25	1.15
1220102--1220163	16	4.0	16	83	4	74	69	3	1	25	1.13
1220109--1220163	20	2.8	20	88	0	83	69	3	1	25	1.15
1221873--1221900	14	2.0	14	100	0	56	21	21	14	42	1.88
1239169--1239317	49	3.0	49	96	0	262	44	13	14	27	1.82
1243015--1243331	159	2.0	158	100	0	625	30	21	17	30	1.96
1253157--1253326	79	2.1	79	82	10	202	31	15	17	35	1.91
1270567--1270606	2	20.0	2	100	0	80	0	50	0	50	1.00
1271281--1271343	2	31.5	2	93	0	108	49	0	50	0	1.00
1275917--1275960	4	11.0	4	82	0	52	50	6	40	2	1.42
1275918--1275968	10	5.3	10	76	9	52	50	9	37	1	1.47
1275917--1275972	14	4.0	14	83	0	67	50	10	37	1	1.48
1275924--1275990	4	17.2	4	86	6	75	50	16	31	1	1.54
1276027--1276066	2	20.0	2	94	0	71	47	0	52	0	1.00
1277915--1277983	11	6.3	11	72	0	57	10	42	24	23	1.85
1277922--1277976	22	2.5	22	90	0	92	10	40	25	23	1.87
1278806--1278855	21	2.4	22	80	10	68	34	26	16	24	1.95
1279615--1279660	21	2.1	22	96	4	85	36	13	10	39	1.79
1279624--1279669	21	2.2	21	88	7	67	43	13	10	32	1.78
1279776--1279851	20	3.8	20	70	16	75	36	14	10	38	1.81
1279952--1280015	21	2.7	23	71	24	62	28	14	15	42	1.86
1279972--1280018	21	2.2	22	88	11	71	25	10	17	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280095--1280151	21	2.7	21	100	0	114	28	5	10	56	1.55
1285553--1285597	2	22.5	2	100	0	90	0	48	0	51	1.00
1295533--1296049	48	10.6	48	90	2	800	32	11	20	35	1.88
1296202--1296245	2	22.0	2	100	0	88	50	0	50	0	1.00
1306787--1306876	4	22.5	4	100	0	180	50	0	24	25	1.50
1310541--1310576	17	2.1	17	94	0	63	50	13	22	13	1.77
1337813--1337849	2	18.5	2	100	0	74	0	48	0	51	1.00
1358511--1358560	21	2.4	21	89	0	73	18	26	26	30	1.98
1360508--1360555	21	2.3	21	85	0	60	29	22	27	20	1.99
1369723--1369765	19	2.2	19	84	12	52	20	6	11	60	1.54
1381864--1381935	36	2.0	36	91	0	117	16	38	19	25	1.92
1384473--1384605	59	2.2	59	86	4	178	25	15	14	45	1.83
1393496--1393576	2	40.5	2	92	0	135	50	3	45	0	1.19
1393500--1393658	6	26.8	6	81	12	105	51	9	37	1	1.42
1393496--1393670	12	14.6	12	78	11	126	52	8	38	1	1.40
1394033--1394091	2	29.5	2	89	0	91	50	5	44	0	1.24
1394032--1394178	6	25.0	6	78	14	101	51	11	35	1	1.47
1394077--1394125	25	2.0	25	88	8	73	55	18	26	0	1.43
1395130--1395198	29	2.5	27	80	11	77	27	7	34	30	1.84
1395171--1395244	18	4.1	18	67	19	55	31	9	32	27	1.88
1395172--1395244	33	2.2	33	82	4	85	31	9	32	26	1.88
1396711--1396746	2	18.0	2	100	0	72	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)
1400365--1400390	1	26.0	1	100	0	52	0	0	0	100	0.00
1402905--1403091	98	1.9	99	85	6	263	39	11	18	31	1.86
1412045--1412077	17	1.9	17	93	0	57	24	6	45	24	1.75
1422567--1422634	27	2.5	27	87	0	91	27	22	20	29	1.98
1423984--1424051	27	2.5	27	87	0	91	27	22	20	29	1.98
1429052--1429107	2	28.0	2	96	0	103	0	48	0	51	1.00
1434333--1434366	17	1.9	18	88	5	52	47	11	8	32	1.71
1434622--1434661	2	20.5	2	94	5	73	50	0	0	50	1.00
1441156--1441194	14	2.9	14	88	3	62	12	0	25	61	1.31
1443907--1443937	2	15.5	2	100	0	62	0	51	0	48	1.00
1444409--1444572	82	2.0	82	96	0	301	34	16	15	33	1.91
1446248--1446301	2	27.0	2	100	0	108	50	0	50	0	1.00
1456822--1457503	146	4.7	146	93	3	1130	28	19	22	29	1.98
1456822--1457508	286	2.4	287	91	3	1121	28	19	22	29	1.98
1459911--1460068	77	2.1	77	88	0	235	30	18	13	37	1.90
1462639--1462673	17	2.1	17	88	0	52	37	8	8	45	1.65
1463328--1463739	14	28.4	14	66	17	148	39	0	56	3	1.22
1463295--1463695	200	2.0	200	100	0	802	39	0	55	3	1.23
1463809--1463900	10	8.7	11	71	16	61	42	0	53	4	1.21
1463829--1463888	23	2.6	23	81	7	59	40	0	53	6	1.27
1463922--1464251	11	29.9	11	64	16	89	40	0	56	2	1.16
1463947--1464167	24	9.7	23	68	17	95	41	0	55	3	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1464034--1464099	13	4.9	13	77	20	73	33	0	65	1	1.02
1464021--1464139	26	4.6	26	71	19	72	41	0	57	0	1.04
1466476--1466520	2	22.5	2	100	0	90	51	0	48	0	1.00
1486998--1487022	2	12.5	2	100	0	50	0	52	0	48	1.00
1489279--1489309	11	2.7	11	95	5	53	6	22	6	64	1.40
1497907--1497959	2	26.5	2	100	0	106	0	50	0	49	1.00
1501457--1501488	2	16.0	2	100	0	64	50	0	50	0	1.00
1521455--1521493	9	4.3	9	86	0	51	7	23	0	69	1.14
1521464--1521492	15	1.9	15	100	0	58	10	20	0	68	1.18
1522171--1522205	19	1.9	17	88	11	52	34	22	5	37	1.78
1521513--1522490	440	2.2	440	91	0	1591	34	17	14	33	1.90
1528039--1528234	24	7.8	24	87	8	293	29	24	7	38	1.83
1528039--1528234	52	3.9	52	93	2	309	29	24	7	38	1.83
1530169--1530234	34	1.9	34	93	0	114	30	15	13	40	1.85
1532859--1532944	30	2.9	30	89	5	129	26	18	26	27	1.98
1533507--1533592	30	2.9	30	85	5	120	26	18	26	27	1.98
1534096--1534725	146	4.5	137	86	8	761	28	22	19	29	1.98
1534155--1534696	277	2.0	266	91	5	870	27	23	19	29	1.98
1534730--1534780	8	6.4	8	88	0	57	41	25	33	0	1.56
1534730--1534767	4	9.5	4	88	0	58	44	26	28	0	1.54
1537753--1538370	36	17.2	36	96	0	1128	27	16	29	25	1.97
1537753--1538677	108	8.7	108	93	3	1608	27	16	29	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538346--1538393	23	2.1	23	100	0	96	27	18	37	16	1.92
1538310--1538429	59	2.0	59	98	0	231	27	17	32	22	1.96
1538369--1538677	36	8.6	36	96	1	575	28	16	29	24	1.97
1540785--1540813	14	2.1	14	100	0	58	13	13	13	58	1.63
1544199--1544317	40	3.0	40	97	0	220	31	25	12	30	1.93
1550590--1550664	22	3.4	22	85	3	89	28	38	17	16	1.91
1552820--1552887	23	3.4	19	80	13	57	39	11	13	35	1.81
1553404--1553445	18	2.3	18	83	0	57	35	14	11	38	1.83
1559321--1559416	21	4.6	21	97	0	165	16	25	32	26	1.96
1575744--1575851	17	6.4	17	100	0	216	28	17	29	24	1.97
1577124--1577167	17	2.5	17	81	7	52	13	15	9	61	1.56
1579856--1580057	87	2.4	85	96	1	377	30	18	19	30	1.96
1580006--1580115	58	1.9	57	94	3	195	32	15	20	31	1.93
1580193--1580267	38	2.0	38	97	0	141	29	12	22	36	1.90
1580047--1580387	184	1.9	184	97	0	646	30	16	19	33	1.94
1580062--1580401	88	3.8	88	78	10	425	30	16	19	34	1.94
1580870--1580995	31	4.1	31	89	0	189	17	15	37	29	1.91
1580918--1580965	15	3.1	15	70	5	51	12	16	41	29	1.85
1581188--1581474	88	3.3	88	96	0	511	33	20	17	29	1.95
1581421--1581529	55	1.9	57	94	5	195	30	20	16	33	1.94
1581479--1581876	86	4.6	86	99	0	780	30	19	19	29	1.97
1581251--1581701	229	2.0	229	93	2	771	31	20	18	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602488--1602564	33	2.4	33	87	10	122	31	25	15	27	1.96
1609346--1609382	17	2.1	17	90	10	56	54	0	13	32	1.40
1609346--1609381	18	1.9	19	88	5	56	55	0	13	30	1.39
1609512--1609639	2	66.5	2	77	10	115	0	39	7	52	1.31

Tables:   1   2   3   4   5

The End!