genome.fa.s113.2.7.7.80.10.50.1000.10.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: Scaffold113
Parameters: 2 7 7 80 10 50 1000
Length:  3764034

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  10  of  23  ( 2678 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)
1525916--1525941	13	2.0	13	100	0	52	30	23	15	30	1.95
1536497--1536539	21	2.0	22	81	4	52	67	2	4	25	1.22
1537606--1537686	42	1.9	43	87	7	121	20	20	12	45	1.83
1537873--1538424	42	13.0	42	71	9	311	19	26	17	36	1.94
1537887--1538442	85	6.6	85	77	5	346	19	26	17	36	1.94
1539430--1539463	17	1.9	17	88	5	50	47	14	29	8	1.75
1539540--1539836	68	4.5	68	78	11	280	30	41	15	13	1.85
1539681--1539797	59	2.0	59	87	0	171	30	42	15	11	1.82
1539814--1539929	49	2.4	49	95	0	205	29	34	15	20	1.94
1540007--1540079	37	1.9	38	83	8	96	34	35	10	19	1.87
1540227--1540272	24	1.9	24	82	8	58	23	10	2	63	1.38
1543817--1543888	35	2.0	36	86	2	101	31	11	12	44	1.77
1543839--1543863	13	1.9	13	100	0	50	36	16	16	32	1.90
1543965--1544085	52	2.3	52	97	0	224	34	18	18	28	1.94
1550480--1550545	21	3.2	21	75	12	66	22	3	18	56	1.55
1550449--1550562	39	2.8	40	80	12	110	25	4	15	54	1.60
1550556--1550624	21	3.2	21	74	11	68	34	8	10	46	1.69
1550814--1550869	21	2.7	21	71	0	58	30	8	12	48	1.72
1550875--1550916	21	2.0	21	85	0	57	33	7	4	54	1.49
1550990--1551073	42	2.0	42	88	0	123	34	3	10	51	1.54
1550954--1551066	11	10.6	11	72	14	94	36	2	8	52	1.47
1550960--1551073	21	5.5	21	76	11	110	36	2	8	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1551475--1551509	17	2.0	18	88	5	54	60	14	2	22	1.48
1553049--1553083	2	17.5	2	93	0	61	48	0	2	48	1.16
1553808--1553836	13	2.2	13	100	0	58	34	10	13	41	1.79
1557786--1557829	15	3.0	15	86	3	54	47	6	0	45	1.29
1558628--1558656	2	14.5	2	100	0	58	0	48	0	51	1.00
1559222--1559248	7	3.9	7	100	0	54	29	11	0	59	1.32
1563636--1563712	16	4.9	16	73	7	68	45	28	12	12	1.80
1563639--1563712	32	2.3	32	81	4	87	43	29	13	13	1.82
1564848--1564918	28	2.5	29	93	2	117	46	0	7	46	1.30
1564898--1564937	20	2.0	20	90	0	62	57	2	5	35	1.34
1566664--1566714	13	4.3	12	79	20	63	49	1	1	47	1.24
1566675--1566714	21	1.9	21	90	10	64	50	0	2	47	1.14
1568925--1568967	22	2.0	20	82	8	50	55	2	0	41	1.12
1568828--1569062	109	2.2	105	81	6	267	47	4	2	45	1.36
1573669--1573788	51	2.4	51	81	5	145	25	16	17	40	1.90
1573700--1573853	52	3.0	52	75	7	118	26	18	16	38	1.91
1574863--1574940	39	2.0	39	100	0	156	35	10	20	33	1.86
1576221--1576309	22	4.2	22	62	25	57	59	14	3	22	1.50
1577756--1577782	11	2.5	11	100	0	54	70	14	0	14	1.17
1578442--1578512	35	2.0	35	86	0	97	36	12	23	26	1.91
1578520--1578692	71	2.4	71	78	2	195	28	10	21	38	1.87
1578529--1578943	36	11.9	34	69	12	155	33	10	21	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578718--1578910	69	2.8	69	83	2	224	34	10	20	34	1.87
1578815--1579007	76	2.6	75	80	8	182	32	9	21	35	1.87
1578848--1579007	36	4.3	37	79	7	146	30	9	23	36	1.86
1580047--1580090	20	2.2	20	88	8	63	29	0	2	68	1.02
1580533--1580605	20	3.6	20	81	3	101	35	13	19	31	1.91
1580551--1580626	21	3.7	21	80	3	100	42	11	17	28	1.84
1580533--1580626	41	2.3	41	98	0	179	39	12	18	29	1.88
1580665--1580690	13	2.0	13	100	0	52	38	15	15	30	1.88
1582832--1582857	13	2.0	13	100	0	52	30	15	15	38	1.88
1584880--1584904	13	1.9	13	100	0	50	32	16	16	36	1.90
1588625--1588650	13	2.0	13	100	0	52	30	15	15	38	1.88
1591732--1591762	15	2.1	15	93	0	53	48	16	22	12	1.80
1593841--1593878	13	2.9	13	96	0	67	34	18	15	31	1.92
1595671--1595732	32	1.9	32	100	0	124	25	3	25	45	1.69
1596354--1596426	20	3.6	20	81	3	101	35	13	19	31	1.91
1596372--1596447	21	3.7	21	80	3	100	42	11	17	28	1.84
1596354--1596447	41	2.3	41	98	0	179	39	12	18	29	1.88
1596486--1596511	13	2.0	13	100	0	52	38	15	15	30	1.88
1597281--1597318	12	2.9	13	84	11	51	71	0	2	26	1.00
1597289--1597318	12	2.4	13	94	5	53	76	0	3	20	0.92
1600048--1600184	66	2.1	66	90	5	215	32	28	14	24	1.95
1608794--1608844	20	2.6	20	87	9	70	27	13	17	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609617--1609708	46	2.0	46	100	0	184	50	13	8	28	1.70
1611260--1611306	23	2.0	24	84	12	62	59	19	4	17	1.53
1612658--1612699	21	2.0	21	85	0	57	23	28	4	42	1.74
1613792--1613858	36	1.9	35	85	11	93	31	25	10	32	1.89
1614318--1614342	13	1.9	13	100	0	50	36	16	16	32	1.90
1614295--1614362	33	2.1	33	89	8	104	32	14	16	36	1.89
1615029--1615573	44	12.4	44	72	10	274	20	22	15	41	1.89
1615026--1615580	87	6.3	87	72	9	284	21	21	15	41	1.90
1615115--1615533	133	3.2	133	81	4	440	21	22	15	40	1.90
1615115--1615433	89	3.6	87	70	14	222	20	21	16	41	1.90
1615028--1615580	220	2.5	219	78	9	572	21	21	15	41	1.89
1615451--1615614	88	1.9	88	81	10	201	22	20	13	43	1.87
1616799--1617571	167	4.6	167	84	5	920	28	12	8	50	1.68
1616799--1617570	335	2.3	333	84	5	977	28	12	8	50	1.68
1618207--1618258	22	2.4	22	87	9	72	71	0	25	3	1.03
1619204--1619524	162	2.0	161	85	4	432	36	9	12	40	1.76
1621212--1621278	33	2.1	33	86	8	93	32	11	19	35	1.88
1621350--1621375	13	2.0	13	100	0	52	38	15	15	30	1.88
1623605--1623645	22	2.0	21	86	13	59	41	4	21	31	1.74
1623777--1623815	13	3.0	13	96	0	69	35	17	15	30	1.91
1628346--1628375	9	3.3	9	95	0	51	26	33	0	40	1.57
1629983--1630007	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1629960--1630027	33	2.1	33	91	8	113	32	13	19	35	1.90
1630059--1630111	20	2.6	21	84	3	72	28	16	15	39	1.89
1630099--1630127	13	2.2	13	100	0	58	37	13	17	31	1.89
1630113--1630163	20	2.5	20	87	0	66	33	15	15	35	1.90
1634059--1634155	4	25.0	4	69	14	51	70	2	3	24	1.13
1634058--1634155	20	4.6	21	76	14	85	69	2	3	25	1.14
1634060--1634163	44	2.4	41	78	12	111	70	1	2	25	1.12
1634202--1634284	38	2.2	38	91	0	139	25	18	9	46	1.79
1634319--1634375	12	4.8	12	86	0	78	22	26	10	40	1.86
1634819--1634890	23	3.0	24	87	4	101	44	34	15	5	1.70
1641619--1641657	13	3.0	13	100	0	78	38	15	15	30	1.88
1647963--1648008	21	2.2	20	81	11	58	32	19	4	43	1.71
1650270--1650322	20	2.7	20	100	0	106	30	15	20	33	1.93
1650374--1650436	19	3.7	18	76	24	73	42	15	14	26	1.86
1650392--1650417	13	2.0	13	100	0	52	38	15	15	30	1.88
1650374--1650436	32	2.0	32	93	6	110	42	15	14	26	1.86
1658865--1659211	85	4.1	83	79	10	328	19	29	16	33	1.94
1659099--1659444	127	2.7	126	78	4	358	19	30	16	34	1.94
1658865--1659283	169	2.5	171	81	3	474	19	29	17	34	1.94
1659009--1659411	211	1.9	212	82	2	506	19	28	17	34	1.94
1658913--1659494	42	13.8	42	71	8	306	19	29	16	34	1.94
1660019--1660084	4	16.0	4	76	17	64	74	0	1	24	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660021--1660091	14	4.7	15	74	19	60	74	0	1	23	0.90
1660021--1660091	10	7.8	9	76	20	60	74	0	1	23	0.90
1660020--1660081	32	1.9	32	93	6	108	74	0	1	24	0.91
1660019--1660091	18	4.1	18	75	22	73	73	0	1	24	0.90
1660191--1660236	14	3.1	14	84	9	56	21	19	8	50	1.75
1660210--1660258	23	2.1	23	88	0	71	22	22	10	44	1.82
1660728--1660798	36	2.0	36	94	0	124	45	36	14	4	1.64
1660728--1660789	19	3.4	19	77	8	83	43	37	14	4	1.67
1661521--1661558	9	4.0	9	93	6	58	10	2	31	55	1.48
1664408--1664475	33	2.1	33	86	2	93	35	20	11	32	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23