genome.fa.s33.2.7.7.80.10.50.1000.10.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: Scaffold33
Parameters: 2 7 7 80 10 50 1000
Length:  2032796

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  10  of  13  ( 1521 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)
1483164--1483199	2	18.0	2	100	0	72	50	0	0	50	1.00
1490289--1490333	10	4.6	10	80	5	56	22	0	6	71	1.09
1490288--1490330	19	2.1	21	91	8	72	20	0	6	72	1.08
1490289--1490350	28	2.2	28	82	2	70	29	0	4	66	1.12
1490371--1490413	13	3.0	15	80	13	63	41	2	0	55	1.12
1490513--1490569	20	2.8	21	71	15	57	59	0	0	40	0.97
1490883--1490923	17	2.4	17	88	8	57	65	9	2	21	1.34
1491625--1491683	29	2.0	30	83	3	75	47	10	1	40	1.47
1495833--1495882	20	2.5	20	79	20	61	66	0	4	30	1.10
1495841--1495887	19	2.6	17	81	15	58	65	0	6	27	1.16
1496298--1496538	105	2.3	105	87	5	328	48	4	4	42	1.42
1497733--1497763	2	15.5	2	100	0	62	48	0	0	51	1.00
1499227--1500000	255	3.0	255	99	0	1532	33	20	16	29	1.94
1502210--1502252	21	2.0	21	100	0	86	67	9	13	9	1.42
1502792--1502839	20	2.5	19	83	12	62	39	0	2	58	1.10
1502904--1503002	8	11.6	8	71	25	62	43	0	0	56	0.99
1502918--1503000	17	4.6	19	72	24	81	42	0	0	57	0.98
1502904--1503002	34	2.9	33	75	19	105	43	0	0	56	0.99
1502970--1503002	9	3.8	9	92	8	59	45	0	0	54	0.99
1503109--1503143	18	1.9	18	88	0	52	48	5	0	45	1.26
1503912--1503976	23	2.9	22	73	13	60	58	0	0	41	0.98
1504324--1504367	23	1.9	23	86	9	63	31	0	6	61	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504630--1504703	16	4.6	16	70	1	58	77	1	17	4	1.00
1507616--1507664	21	2.3	20	80	16	55	59	4	2	34	1.28
1512104--1512181	40	2.0	39	84	2	102	39	12	10	37	1.78
1512742--1513815	32	36.1	30	89	5	1214	20	17	32	29	1.96
1512742--1513815	143	7.2	143	89	4	1231	20	17	32	29	1.96
1512781--1513817	257	3.9	263	89	6	1415	20	17	32	29	1.95
1512743--1513818	114	9.1	114	90	3	1228	20	17	32	28	1.96
1515048--1515106	1	59.0	1	75	0	55	0	1	10	88	0.60
1515050--1515106	13	4.7	12	85	10	80	0	1	10	87	0.61
1515038--1515106	24	2.8	25	85	12	83	1	2	10	85	0.76
1515055--1515106	12	4.5	11	86	13	77	0	0	11	88	0.52
1515061--1515112	24	2.1	25	89	3	79	0	0	19	80	0.71
1526060--1526134	20	3.8	20	78	0	87	34	13	12	40	1.81
1526060--1526137	40	2.0	39	87	2	111	34	12	12	39	1.82
1527046--1527099	22	2.5	22	96	3	101	18	11	9	61	1.55
1531834--1531961	52	2.5	52	94	3	224	33	17	17	30	1.94
1536311--1536475	86	1.9	86	91	4	271	38	18	16	26	1.92
1541002--1541196	92	2.1	92	85	3	259	35	19	6	38	1.77
1541229--1541269	18	2.3	19	79	12	50	41	17	12	29	1.85
1541271--1541711	165	2.7	163	80	5	485	34	17	7	40	1.77
1541687--1541838	39	3.9	40	73	3	123	40	11	4	42	1.62
1542130--1542162	14	2.4	14	90	10	50	54	3	6	36	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542395--1542436	11	4.0	11	84	12	52	42	0	0	57	0.99
1542399--1542436	20	1.9	20	88	0	58	39	0	0	60	0.97
1542396--1542465	28	2.6	27	76	14	74	44	0	0	55	0.99
1542422--1542462	21	2.0	21	85	9	57	51	0	0	48	1.00
1546485--1546633	51	2.8	53	85	4	203	42	8	20	28	1.80
1547407--1547456	18	2.7	19	75	12	59	46	2	6	46	1.39
1547371--1547503	36	3.8	34	75	11	108	44	2	3	50	1.29
1547371--1547503	72	1.9	69	83	7	169	44	2	3	50	1.29
1548114--1548232	16	7.5	16	73	9	100	37	27	15	18	1.92
1548114--1548232	32	3.8	32	76	8	118	37	27	15	18	1.92
1549221--1549284	31	2.1	31	90	0	101	40	31	12	15	1.85
1549224--1549279	16	3.6	16	75	4	60	42	30	10	16	1.82
1549292--1549360	16	4.2	16	81	9	77	39	27	17	15	1.90
1549275--1549350	32	2.4	32	82	8	84	39	31	17	11	1.85
1549647--1549677	2	15.5	2	100	0	62	51	0	0	48	1.00
1562898--1562993	21	4.6	20	81	8	102	40	37	11	10	1.76
1562954--1563029	30	2.4	33	86	6	104	47	36	7	7	1.62
1564043--1564073	16	1.9	16	100	0	62	25	25	9	38	1.86
1565684--1565841	50	3.2	51	80	2	160	39	36	8	15	1.79
1565725--1565841	49	2.3	50	85	2	155	37	38	7	16	1.77
1568845--1568882	20	1.9	20	88	0	58	81	10	0	7	0.87
1570454--1570502	2	25.5	2	87	8	75	48	2	0	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570508--1570532	2	12.5	2	100	0	50	0	0	48	52	1.00
1579299--1579331	2	16.5	2	100	0	66	48	0	0	51	1.00
1579714--1579738	2	12.5	2	100	0	50	52	48	0	0	1.00
1581075--1581133	11	5.4	11	75	18	52	10	8	0	81	0.88
1581073--1581133	27	2.3	27	82	0	68	11	8	0	80	0.91
1581208--1581277	33	2.2	32	82	12	81	55	1	0	42	1.08
1581872--1581919	25	1.9	25	86	0	69	43	0	0	56	0.99
1583775--1583812	1	38.0	1	89	0	58	94	0	0	5	0.30
1583771--1583811	21	2.0	21	100	0	82	92	0	0	7	0.38
1584495--1584530	15	2.4	15	90	0	54	22	2	0	75	0.94
1586189--1586213	13	1.9	13	100	0	50	48	0	8	44	1.32
1586602--1586654	25	2.1	24	89	3	70	56	9	0	33	1.32
1586602--1586672	26	2.6	26	84	13	81	50	11	1	36	1.47
1587892--1588039	20	6.8	20	75	18	109	31	17	12	38	1.87
1587912--1588087	51	3.7	50	72	16	174	30	17	13	39	1.88
1587885--1588017	71	1.9	71	90	3	214	30	19	11	38	1.87
1587892--1588087	91	2.2	91	88	1	286	30	17	12	39	1.87
1588510--1588539	13	2.2	14	94	5	53	73	20	0	6	1.05
1590314--1590386	27	2.7	27	89	0	101	24	35	19	20	1.95
1592299--1592337	20	2.0	20	84	0	51	15	10	7	66	1.43
1598431--1598484	26	2.1	25	83	10	65	16	31	3	48	1.64
1602029--1602089	10	6.1	10	71	7	52	81	13	3	1	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602031--1602089	26	2.3	25	88	2	82	83	11	3	1	0.85
1602031--1602065	15	2.4	15	90	4	54	85	14	0	0	0.59
1603310--1603995	28	24.0	28	87	4	858	29	30	17	23	1.97
1603308--1603996	85	8.0	85	87	3	893	29	30	17	23	1.97
1603308--1603996	113	6.0	114	87	4	917	29	30	17	23	1.97
1604590--1604725	51	2.7	51	91	0	218	27	19	11	41	1.85
1606867--1607096	95	2.4	96	93	0	381	24	26	16	31	1.96
1607597--1607624	9	3.1	9	100	0	56	53	21	14	10	1.70
1610206--1610241	18	2.0	18	89	10	56	33	22	16	27	1.95
1610469--1610505	18	2.0	20	89	10	60	67	0	0	32	0.91
1618691--1618751	9	7.1	9	74	10	65	13	44	0	42	1.43
1618662--1618781	42	2.9	42	94	0	204	11	45	0	43	1.40
1618696--1618772	12	6.9	12	77	19	71	12	46	0	40	1.42
1621591--1621645	15	3.7	15	76	9	51	52	1	1	43	1.22
1621679--1621734	31	1.9	31	82	13	75	48	12	0	39	1.41
1622506--1622541	3	12.0	3	100	0	72	33	0	0	66	0.92
1626153--1626234	11	6.2	13	74	19	55	30	1	2	65	1.13
1626153--1626212	24	2.4	25	80	2	68	35	0	1	63	1.05
1627589--1627627	16	2.4	16	80	16	53	48	2	0	48	1.15
1632029--1632065	2	19.0	2	94	5	67	51	0	0	48	1.00
1638321--1638361	16	2.5	17	80	4	57	48	4	0	46	1.23
1638672--1638712	15	2.7	15	88	0	55	41	19	2	36	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639214--1639307	46	2.0	46	100	0	188	45	17	7	29	1.75
1639906--1639970	19	3.4	19	75	10	69	38	0	1	60	1.07
1639903--1639985	22	4.0	22	70	22	61	39	0	3	56	1.17
1648263--1648318	27	2.0	28	83	13	71	53	1	0	44	1.11
1650928--1650969	3	14.0	3	100	0	84	33	0	0	66	0.92
1651227--1651278	16	3.3	15	80	17	61	38	0	1	59	1.08
1651227--1651265	15	2.5	15	84	15	53	38	0	2	58	1.12
1651632--1651669	18	2.2	18	90	9	62	34	2	0	63	1.09
1651639--1651691	24	2.3	23	84	15	65	33	1	0	64	1.05
1652764--1652791	2	14.0	2	100	0	56	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13