genome.fa.s141.2.7.7.80.10.50.1000.9.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: Scaffold141
Parameters: 2 7 7 80 10 50 1000
Length:  2772588

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

This is table  9  of  18  ( 2069 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)
1495778--1495854	20	3.8	20	79	6	84	44	9	14	32	1.76
1496405--1497285	32	29.5	28	81	8	645	22	18	29	30	1.97
1498500--1498591	20	4.8	19	80	19	95	1	5	13	80	0.94
1498500--1498589	10	9.3	10	78	17	75	1	5	12	81	0.92
1498500--1498589	9	9.3	9	76	19	51	1	5	12	81	0.92
1498528--1498592	28	2.3	26	84	5	67	0	3	13	83	0.77
1498517--1498591	9	8.0	9	78	12	80	0	4	13	82	0.80
1510185--1510309	20	5.7	20	69	18	88	40	13	16	29	1.87
1513641--1513694	20	2.7	20	100	0	108	25	20	14	38	1.91
1513712--1513810	20	4.7	20	75	15	92	29	18	13	39	1.88
1513740--1513789	25	2.0	25	100	0	100	28	20	12	40	1.87
1516086--1516260	51	3.5	51	83	3	194	28	25	10	34	1.90
1516201--1516431	79	2.9	79	85	1	293	28	25	13	32	1.94
1516280--1516528	130	1.9	130	87	3	367	29	26	12	31	1.93
1516149--1516581	209	2.1	206	89	3	645	28	26	13	31	1.94
1516536--1516606	28	2.5	28	93	0	115	22	28	22	26	1.99
1516564--1516876	79	3.9	78	80	5	315	27	26	14	31	1.95
1530510--1530565	19	2.9	20	81	7	80	26	12	17	42	1.85
1531202--1531237	18	2.0	18	100	0	72	38	16	5	38	1.72
1533117--1533152	13	2.8	13	95	0	63	30	13	19	36	1.91
1535229--1535259	15	2.1	15	93	0	53	12	22	16	48	1.80
1540327--1540469	26	5.3	26	64	18	85	26	30	20	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540299--1540600	55	5.5	55	93	2	509	27	28	22	21	1.99
1540267--1540604	110	3.0	109	91	3	525	26	27	21	24	1.99
1540552--1540941	154	2.5	155	88	2	559	24	26	20	28	1.99
1541001--1541149	74	2.0	74	92	0	244	22	30	15	32	1.95
1541145--1541400	118	2.2	112	85	9	320	26	26	19	26	1.99
1541171--1541395	61	3.8	60	77	10	230	26	28	19	26	1.99
1541384--1541489	45	2.5	42	81	10	117	20	26	16	35	1.94
1542371--1542396	13	2.0	13	100	0	52	30	15	15	38	1.88
1544741--1544923	51	3.6	51	81	6	210	27	26	11	33	1.91
1544823--1545124	130	2.3	130	86	1	421	28	25	13	33	1.93
1545116--1545185	28	2.5	28	88	9	99	24	28	17	30	1.97
1545004--1545154	76	1.9	79	84	4	200	28	25	13	31	1.94
1545036--1545264	104	2.2	104	83	5	282	25	24	17	31	1.97
1545144--1545451	79	3.9	77	78	5	287	26	25	14	33	1.94
1547668--1548164	80	6.3	80	76	5	402	29	25	10	34	1.90
1547679--1548110	157	2.7	157	79	6	458	29	24	9	35	1.88
1549826--1549960	41	3.3	41	81	6	148	31	16	9	42	1.80
1550913--1550951	3	13.0	3	94	0	51	58	0	7	33	1.26
1555292--1555375	30	2.7	30	78	8	89	26	28	19	26	1.98
1555415--1555527	27	4.0	27	73	13	100	23	34	15	27	1.94
1555387--1555582	33	6.3	32	74	15	169	22	34	13	29	1.92
1555387--1555561	60	2.9	60	87	5	246	22	34	14	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1555573--1555664	33	2.8	33	91	3	141	31	35	18	14	1.90
1555674--1556374	49	14.6	49	83	7	870	25	25	17	30	1.97
1555674--1556374	98	7.3	98	89	5	1008	25	25	17	30	1.97
1555674--1556374	190	3.7	191	88	7	962	25	25	17	30	1.97
1556286--1556393	52	2.0	55	87	5	159	24	24	15	36	1.94
1557311--1557335	13	1.9	13	100	0	50	36	16	16	32	1.90
1557291--1557355	33	2.0	33	87	0	94	33	12	13	40	1.82
1557398--1557425	13	2.2	13	100	0	56	28	14	17	39	1.89
1557431--1557551	52	2.3	52	91	0	197	34	19	17	28	1.94
1561185--1561255	24	3.1	23	76	7	65	36	22	7	33	1.81
1562493--1562517	13	1.9	13	100	0	50	36	16	16	32	1.90
1562473--1562539	33	2.0	33	88	0	98	32	11	14	40	1.83
1562580--1562607	13	2.2	13	100	0	56	28	14	17	39	1.89
1562613--1562732	52	2.3	52	94	0	204	35	16	17	30	1.92
1570741--1570778	16	2.3	17	86	4	51	44	23	5	26	1.74
1570881--1571028	32	4.8	30	84	7	163	22	31	16	30	1.95
1570884--1571537	34	20.7	32	74	14	366	21	32	13	32	1.92
1570982--1571538	61	8.9	60	78	13	432	21	33	12	32	1.91
1571067--1571122	27	2.1	26	86	3	76	21	32	14	32	1.93
1571032--1571551	96	5.4	96	81	11	511	20	32	12	34	1.90
1571315--1571442	62	2.1	62	85	5	170	21	31	12	34	1.91
1571093--1571501	223	1.8	220	85	8	569	21	32	12	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571381--1571559	34	5.3	34	74	12	152	21	32	12	32	1.91
1571547--1571712	33	5.0	33	91	2	271	28	33	17	20	1.95
1571712--1572041	43	6.8	49	80	10	333	25	24	17	32	1.97
1571707--1571992	92	3.1	92	92	2	455	25	25	17	32	1.97
1571893--1572113	52	3.9	55	75	13	180	23	25	15	36	1.94
1572831--1572896	20	3.7	20	73	26	83	34	12	18	34	1.88
1572852--1572909	13	3.9	13	73	26	53	36	13	17	32	1.89
1572832--1572931	33	3.0	33	94	0	164	34	12	16	38	1.85
1572985--1573124	52	2.7	51	86	4	190	35	16	17	31	1.92
1580806--1580939	49	2.7	50	90	1	198	26	14	16	41	1.87
1583214--1583757	79	6.9	79	72	9	304	27	25	15	32	1.95
1583301--1583412	51	2.2	51	88	0	170	30	28	11	29	1.92
1583392--1583463	28	2.6	28	93	0	117	23	27	20	27	1.99
1583582--1583747	78	2.1	79	85	3	228	29	21	13	36	1.91
1586566--1586591	13	2.0	13	100	0	52	38	15	15	30	1.88
1586640--1586693	21	2.7	20	77	8	65	38	14	12	33	1.85
1587537--1587618	26	2.9	29	63	17	73	19	19	30	30	1.96
1587348--1588697	55	23.4	60	83	10	1478	26	20	27	26	1.99
1587348--1588699	116	11.7	114	85	8	1546	25	20	27	26	1.99
1600133--1600157	13	1.9	13	100	0	50	36	16	16	32	1.90
1600113--1600177	33	2.0	33	87	0	94	33	12	13	40	1.82
1600220--1600247	13	2.2	13	100	0	56	28	14	17	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608521--1608605	30	2.8	31	83	3	109	24	25	17	31	1.97
1608569--1609014	33	13.4	33	83	11	413	19	33	12	33	1.90
1608582--1609014	70	6.4	69	82	11	465	20	34	12	33	1.90
1608582--1609014	34	12.9	34	84	9	416	20	34	12	33	1.90
1608719--1608845	31	4.2	28	75	17	112	22	34	14	29	1.93
1609018--1609253	33	7.2	33	87	7	320	28	35	16	19	1.94
1609016--1609253	67	3.6	67	88	5	351	28	35	16	18	1.93
1609253--1609874	49	12.7	49	85	4	839	25	26	17	30	1.97
1609253--1609874	98	6.4	98	91	5	965	25	26	17	30	1.97
1609253--1609874	195	3.2	196	92	3	992	25	26	17	30	1.97
1612511--1612535	13	1.9	13	100	0	50	36	16	16	32	1.90
1612491--1612555	33	2.0	33	87	0	94	33	12	13	40	1.82
1612598--1612625	13	2.2	13	100	0	56	28	14	17	39	1.89
1615938--1615962	4	6.2	4	100	0	50	76	0	0	24	0.80
1618043--1618242	106	1.9	107	80	7	237	31	12	28	29	1.92
1618178--1618573	52	7.6	50	70	17	223	31	12	26	29	1.92
1618381--1618457	28	2.8	28	84	4	84	24	19	32	23	1.97
1626281--1626429	52	2.9	52	89	6	223	31	18	18	32	1.94
1626418--1626442	13	1.9	13	100	0	50	36	16	16	32	1.90
1626505--1626529	13	1.9	13	100	0	50	32	16	16	36	1.90
1627585--1627787	97	2.1	97	83	1	246	31	24	8	35	1.86
1629238--1629320	20	4.1	20	75	6	69	43	3	10	42	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632309--1632357	10	4.7	10	81	16	55	2	18	0	79	0.83
1633260--1633293	18	1.9	17	88	5	50	17	0	14	67	1.23
1635139--1635170	3	10.7	3	93	0	55	28	3	0	68	1.04
1635569--1635606	17	2.2	17	100	0	76	28	23	10	36	1.88
1637793--1637909	51	2.3	52	80	4	148	31	26	11	29	1.92
1637892--1637968	28	2.8	28	86	7	104	25	32	16	24	1.96
1638002--1638087	28	3.0	28	81	3	91	20	27	19	31	1.97
1638061--1638311	51	4.9	51	78	3	247	29	23	12	35	1.91
1644435--1645064	61	10.3	61	84	5	765	24	27	20	27	1.99
1644435--1645074	244	2.6	243	87	3	908	24	27	20	27	1.99

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