oyster.v9_M.fa.s7.2.7.7.80.10.50.500.4.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: scaffold1532
Parameters: 2 7 7 80 10 50 500
Length:  1715538

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 495 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)
1331508--1331644	58	2.4	58	97	0	256	31	18	16	33	1.93
1331547--1331643	27	3.4	27	77	10	113	30	18	17	32	1.94
1332475--1332529	2	27.5	2	100	0	110	0	50	0	49	1.00
1335853--1335890	2	19.0	2	100	0	76	0	50	0	50	1.00
1337057--1337091	16	2.2	16	94	0	61	22	0	8	68	1.16
1340732--1340788	28	2.0	28	100	0	114	21	22	24	31	1.98
1346596--1346645	24	2.1	24	82	10	59	66	16	0	18	1.26
1350501--1350550	24	2.1	24	96	0	91	22	14	30	34	1.93
1352668--1352761	32	2.9	32	90	0	152	26	15	28	28	1.96
1352668--1352779	32	3.5	32	87	1	145	25	18	26	29	1.98
1354503--1354528	12	2.2	12	100	0	52	34	26	0	38	1.57
1373293--1373318	13	2.0	13	100	0	52	53	0	0	46	1.00
1380092--1380270	15	11.3	15	74	13	126	31	34	8	25	1.86
1380142--1380256	20	5.8	20	75	4	106	29	34	9	26	1.88
1380320--1380368	20	2.5	20	82	0	62	28	36	8	26	1.85
1380329--1380383	25	2.2	25	83	0	65	32	34	9	23	1.86
1380202--1380486	113	2.5	116	87	2	432	33	34	5	26	1.79
1380433--1380622	5	38.0	5	94	0	326	38	37	1	22	1.61
1381746--1381800	18	3.2	18	82	14	71	1	10	5	81	0.92
1381740--1381795	19	2.9	19	84	12	69	1	12	5	80	0.96
1381746--1381802	17	3.2	17	78	11	62	1	12	5	80	0.95
1382237--1382485	126	2.0	126	90	1	392	34	14	16	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382472--1382545	37	2.0	37	91	0	121	31	17	10	40	1.84
1383225--1383263	19	2.1	19	95	0	69	20	15	23	41	1.90
1385620--1385651	16	2.0	16	93	0	55	56	3	15	25	1.54
1387443--1387542	52	2.0	50	90	5	150	27	52	7	13	1.65
1390950--1390981	15	2.1	15	100	0	64	12	18	28	40	1.87
1396714--1396740	2	13.5	2	100	0	54	0	48	0	51	1.00
1398795--1398842	2	24.0	2	100	0	96	50	0	50	0	1.00
1402038--1402099	32	1.9	32	96	0	115	40	12	12	33	1.82
1407092--1407130	4	10.0	4	88	5	53	0	0	17	82	0.68
1407093--1407134	12	3.5	12	90	0	66	0	0	14	85	0.59
1407138--1407180	19	2.3	19	95	0	77	48	18	9	23	1.76
1409433--1409471	2	19.5	2	100	0	78	48	0	51	0	1.00
1413517--1413572	2	27.5	2	96	3	103	48	0	50	0	1.01
1420264--1420300	2	19.0	2	94	5	67	48	0	51	0	1.00
1424286--1424370	2	43.0	2	97	2	163	0	50	0	49	1.00
1426448--1426479	2	16.0	2	100	0	64	50	0	50	0	1.00
1428776--1428827	2	26.0	2	100	0	104	50	0	50	0	1.00
1431128--1431176	21	2.3	21	100	0	98	46	16	12	24	1.81
1431137--1431184	21	2.3	21	92	0	78	41	14	18	25	1.88
1450189--1450304	58	2.0	58	86	0	160	27	17	16	38	1.91
1459347--1459727	191	2.0	190	99	0	744	24	24	19	31	1.98
1461501--1461549	2	24.5	2	100	0	98	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)
1463959--1464024	2	33.0	2	100	0	132	50	0	50	0	1.00
1472501--1473049	250	2.2	244	86	5	752	48	16	16	18	1.81
1472505--1473049	189	3.0	183	85	5	733	49	16	16	18	1.80
1472501--1473049	61	8.9	61	87	4	737	48	16	16	18	1.81
1477915--1477939	9	2.8	9	100	0	50	88	12	0	0	0.53
1487637--1487680	20	2.1	21	87	4	63	43	20	4	31	1.72
1494129--1494230	48	2.1	48	90	9	161	41	10	12	35	1.78
1500031--1500079	23	2.1	23	85	11	64	53	4	4	38	1.39
1504849--1504930	42	1.9	43	87	2	121	32	9	20	36	1.86
1504845--1505080	46	5.3	45	78	8	212	33	9	20	37	1.85
1504827--1505055	91	2.5	88	77	10	214	34	10	20	35	1.86
1506702--1506823	62	2.0	62	100	0	244	40	11	18	30	1.85
1515135--1515738	167	3.6	166	85	2	784	27	24	14	33	1.94
1533770--1533848	22	3.4	25	85	13	98	55	3	6	34	1.43
1535237--1535326	20	4.4	20	80	13	85	32	10	3	54	1.50
1535205--1535375	22	7.8	20	75	14	137	32	8	5	54	1.52
1542352--1542523	85	2.0	86	89	1	265	31	16	13	37	1.88
1547004--1547048	8	5.6	8	83	0	63	35	24	40	0	1.56
1547001--1547038	12	3.2	12	92	0	67	39	26	34	0	1.57
1549807--1549850	1	44.0	1	100	0	88	100	0	0	0	0.00
1549891--1549930	12	3.2	12	89	3	53	90	10	0	0	0.47
1549889--1549926	15	2.5	15	95	4	67	92	7	0	0	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549889--1549926	20	1.9	20	94	0	67	92	7	0	0	0.40
1569835--1569868	2	17.0	2	93	0	59	47	52	0	0	1.00
1570079--1570131	27	2.0	27	84	0	70	37	28	7	26	1.83
1573453--1573514	21	2.9	22	80	4	72	32	17	38	11	1.85
1578628--1578671	2	22.0	2	100	0	88	50	0	50	0	1.00
1579196--1579236	19	2.2	19	100	0	82	41	9	4	43	1.59
1579229--1579296	2	34.0	2	87	0	100	50	0	5	44	1.26
1579225--1579296	12	6.2	12	91	6	121	50	0	6	43	1.29
1580767--1580804	3	12.7	3	100	0	76	34	34	0	31	1.58
1585819--1585864	20	2.3	20	92	0	74	50	15	4	30	1.63
1585827--1585877	20	2.5	20	90	6	77	52	17	0	29	1.45
1591819--1594503	176	15.1	176	86	2	3530	34	16	20	29	1.94
1599714--1599761	24	2.0	24	95	0	87	20	27	8	43	1.80
1600429--1600468	16	2.5	16	83	0	53	37	30	12	20	1.89
1604899--1604931	2	16.5	2	100	0	66	51	48	0	0	1.00
1608234--1608260	12	2.2	12	100	0	54	48	14	11	25	1.77
1608743--1608783	2	20.5	2	100	0	82	0	51	0	48	1.00
1615761--1615822	2	31.0	2	100	0	124	0	50	0	50	1.00
1616018--1616059	21	2.0	20	82	13	50	26	4	11	57	1.54
1618838--1618873	4	9.0	4	93	0	54	0	30	25	44	1.54
1618843--1618880	12	3.2	12	84	0	58	0	34	26	39	1.57
1618838--1618877	20	2.0	20	95	0	71	0	32	25	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618904--1619444	166	3.3	167	90	1	890	29	18	14	37	1.90
1621253--1621320	34	2.0	34	91	0	109	29	19	13	38	1.89
1624310--1625049	39	19.0	39	91	0	1063	27	10	32	29	1.90
1625366--1626580	39	31.2	39	92	0	1878	27	9	33	29	1.89
1631107--1631156	24	2.1	24	100	0	100	52	4	8	36	1.50
1632268--1632321	22	2.5	22	90	0	81	11	44	14	29	1.80
1645087--1645163	33	2.4	33	93	2	138	32	25	15	25	1.96
1645751--1645815	21	3.1	20	72	14	60	33	16	10	38	1.84
1646222--1646252	10	3.2	10	90	9	55	22	6	0	70	1.09
1646345--1646419	2	37.5	2	94	0	105	0	46	0	46	1.03
1648005--1648038	13	2.5	14	90	4	52	61	8	0	29	1.26
1648268--1648299	12	2.5	13	95	5	57	43	6	0	50	1.27
1650836--1650866	15	2.1	15	100	0	62	54	0	25	19	1.44
1654626--1654656	10	3.1	10	90	0	53	61	25	0	12	1.32
1658546--1658603	2	29.0	2	100	0	116	0	50	0	50	1.00
1662402--1662732	134	2.5	134	82	7	374	26	25	21	27	1.99
1663872--1663935	2	32.0	2	100	0	128	0	50	0	50	1.00
1668030--1668116	30	2.9	29	81	11	97	10	41	16	32	1.82
1672853--1674358	166	9.2	165	87	4	1897	29	22	14	34	1.93
1676208--1676256	2	24.5	2	100	0	98	0	51	0	48	1.00
1677560--1677591	11	2.9	11	95	0	55	28	28	9	34	1.88
1677600--1677652	22	2.4	22	83	0	70	39	11	28	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1677657--1677685	11	2.6	11	100	0	58	27	31	10	31	1.90
1677717--1677745	11	2.6	11	100	0	58	27	31	10	31	1.90
1677656--1677805	60	2.5	60	100	0	300	29	27	11	32	1.91
1677777--1677841	11	5.9	11	96	0	121	27	33	9	29	1.88
1678859--1679081	112	2.0	112	95	0	401	30	18	18	31	1.96
1679295--1679344	2	25.0	2	95	0	91	52	0	48	0	1.00
1679673--1679733	22	2.8	22	78	9	70	42	14	24	18	1.88
1679726--1679775	11	4.6	11	92	2	75	34	10	28	28	1.89
1679856--1679885	11	2.7	11	94	0	51	26	30	10	33	1.89
1681062--1681097	4	9.0	4	93	0	54	0	30	25	44	1.54

Tables:   1   2   3   4   5