genome.fa.s34.2.7.7.80.10.50.1000.11.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: Scaffold34
Parameters: 2 7 7 80 10 50 1000
Length:  1758877

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

This is table  11  of  12  ( 1352 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)
1552361--1552428	17	3.9	17	68	24	61	48	13	5	32	1.66
1553247--1553334	26	3.3	26	68	20	81	19	18	35	27	1.95
1553089--1553801	55	12.3	59	85	7	832	24	21	29	25	1.99
1567356--1567534	52	3.5	51	82	5	177	32	14	26	26	1.95
1567313--1567534	51	4.4	51	78	2	194	31	13	27	27	1.94
1567576--1567706	51	2.5	51	81	12	158	31	10	26	31	1.90
1569996--1570022	13	2.1	13	100	0	54	40	14	14	29	1.86
1570065--1570128	33	2.0	32	90	3	101	39	14	12	34	1.83
1570166--1570242	21	3.7	21	91	0	118	35	16	11	36	1.86
1571329--1571386	19	3.0	20	87	12	93	32	1	34	31	1.68
1571329--1571389	20	3.0	21	82	17	85	34	1	34	29	1.68
1571897--1571970	20	3.7	19	76	16	62	37	20	13	28	1.90
1572033--1572100	33	2.1	32	88	2	100	36	17	13	32	1.89
1575038--1575073	3	12.0	3	93	0	63	30	0	36	33	1.58
1575677--1576339	344	1.9	344	87	1	979	41	12	14	31	1.83
1579967--1580024	13	4.9	13	68	23	56	31	15	13	39	1.86
1579979--1580044	20	3.7	20	71	26	74	31	15	10	42	1.81
1579967--1580058	33	2.8	33	98	0	175	32	15	11	40	1.84
1581585--1581636	20	2.6	20	100	0	104	30	11	19	38	1.87
1582690--1582861	52	3.1	52	67	20	141	38	13	15	32	1.87
1582631--1582861	114	2.0	114	94	0	408	34	15	16	33	1.90
1583590--1583635	20	2.3	19	85	7	56	45	13	4	36	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585477--1585514	13	2.9	13	92	0	58	39	13	13	34	1.83
1586199--1586276	20	3.9	19	76	6	75	33	11	14	41	1.81
1586199--1586276	40	2.0	39	84	2	102	33	11	14	41	1.81
1598153--1598233	41	2.0	41	97	0	153	24	12	19	43	1.86
1603057--1603082	13	2.0	13	100	0	52	30	15	15	38	1.88
1606799--1606845	5	9.6	5	86	4	69	85	14	0	0	0.61
1606810--1606870	10	6.3	10	85	9	58	83	9	4	1	0.86
1606800--1606864	24	2.8	23	86	4	85	84	10	3	1	0.80
1606800--1606864	12	5.6	11	76	21	62	84	10	3	1	0.80
1608070--1609381	28	45.7	28	83	5	1430	28	30	18	22	1.97
1610012--1610083	20	3.6	20	78	0	81	34	13	11	40	1.81
1610988--1611026	20	1.9	21	84	5	53	20	10	10	58	1.59
1618733--1618800	35	1.9	35	96	0	127	54	16	1	27	1.51
1619347--1619397	24	2.1	24	96	0	93	37	21	7	33	1.82
1619686--1619722	13	2.8	13	91	4	56	59	0	5	35	1.20
1620269--1620304	2	18.0	2	94	0	63	47	0	2	50	1.15
1620746--1620830	3	26.7	3	78	17	75	68	1	2	28	1.09
1624674--1624783	50	2.2	50	83	3	132	35	17	16	30	1.92
1625970--1626012	15	2.7	15	82	7	50	30	2	0	67	1.03
1626841--1626883	2	22.0	2	95	4	79	48	0	0	51	1.00
1627571--1627605	8	4.2	8	89	7	52	74	2	0	22	0.95
1627571--1627605	17	2.1	17	94	0	61	74	2	0	22	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627771--1627819	24	2.1	23	85	11	64	38	2	2	57	1.22
1631425--1631485	30	2.0	30	84	6	79	60	0	1	37	1.07
1632084--1632142	17	3.4	17	88	2	91	30	1	0	67	1.00
1632691--1632737	16	2.9	16	84	12	53	53	12	6	27	1.63
1632704--1632737	15	2.1	17	89	10	54	50	14	5	29	1.67
1632749--1632803	24	2.2	25	81	12	69	63	0	1	34	1.05
1633239--1633269	13	2.4	13	100	0	62	45	6	6	41	1.55
1633239--1633281	13	3.3	13	90	6	52	48	4	6	39	1.51
1633967--1634008	19	2.2	19	91	0	66	45	0	0	54	0.99
1634724--1634763	21	1.9	21	89	0	62	27	30	5	37	1.78
1640382--1640636	138	1.8	138	83	3	334	38	18	22	21	1.94
1642088--1642125	20	1.9	20	84	10	51	42	2	0	55	1.14
1647036--1647103	16	4.2	17	74	23	58	54	1	0	44	1.09
1647096--1647134	17	2.1	17	86	13	51	66	0	2	30	1.05
1647049--1647135	36	2.5	34	76	16	88	58	1	1	39	1.13
1647505--1647564	25	2.4	25	86	8	77	61	1	1	35	1.16
1647721--1647761	21	2.0	21	90	0	64	41	2	0	56	1.13
1650189--1650230	18	2.3	18	87	0	57	40	4	4	50	1.45
1656307--1656365	28	2.1	28	84	15	77	59	0	1	38	1.08
1656451--1656519	36	1.9	36	82	5	86	34	7	24	33	1.83
1658934--1658975	15	2.8	15	79	13	50	38	4	4	52	1.44
1660253--1660293	17	2.3	18	80	16	50	26	0	7	65	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662826--1662862	19	2.0	19	89	5	58	62	0	8	29	1.24
1664053--1664231	97	1.8	97	95	0	322	35	12	21	30	1.90
1665764--1665795	12	2.6	13	90	9	50	81	0	18	0	0.70
1665753--1665794	11	3.8	11	81	12	50	76	0	21	2	0.90
1666926--1667219	155	1.9	155	82	2	376	23	16	21	38	1.93
1668046--1668070	13	1.9	13	100	0	50	32	16	16	36	1.90
1672271--1672364	20	4.8	19	75	14	84	34	17	14	34	1.90
1676918--1676984	33	2.0	33	88	0	98	34	11	13	40	1.81
1676938--1676962	13	1.9	13	100	0	50	36	16	16	32	1.90
1677027--1677051	13	1.9	13	100	0	50	32	16	16	36	1.90
1677060--1677180	52	2.3	52	97	0	224	34	18	18	28	1.94
1680432--1680531	1	100.0	1	69	0	65	85	15	0	0	0.61
1680437--1680529	14	6.6	14	79	15	104	83	16	0	0	0.64
1680436--1680531	15	6.4	16	79	14	84	84	15	0	0	0.63
1680435--1680531	17	5.5	17	77	14	90	84	15	0	0	0.62
1680432--1680531	39	2.6	38	85	13	127	85	15	0	0	0.61
1680776--1680811	1	36.0	1	94	0	63	97	0	2	0	0.18
1681780--1681998	32	6.7	32	75	12	160	22	31	13	32	1.92
1681812--1681997	35	5.6	33	79	12	188	22	33	12	31	1.92
1681812--1681997	70	2.9	62	81	11	207	22	33	12	31	1.92
1681865--1682022	34	4.5	36	83	6	189	20	34	10	34	1.88
1681865--1682022	36	4.5	35	80	6	167	20	34	10	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682007--1682071	33	1.9	34	96	3	123	27	36	18	16	1.93
1682101--1682777	49	13.9	49	87	2	976	24	25	17	32	1.96
1682101--1682776	98	7.0	98	97	1	1222	24	25	17	32	1.96
1682692--1682810	43	2.8	43	86	6	145	26	23	18	31	1.97
1682650--1682811	43	3.7	41	81	9	137	25	24	17	32	1.97
1682735--1683112	171	2.3	164	88	9	558	24	24	14	36	1.93
1682994--1683113	60	2.0	61	85	1	161	24	24	13	38	1.91
1683911--1683977	33	2.0	33	88	0	98	34	11	13	40	1.81
1683931--1683955	13	1.9	13	100	0	50	36	16	16	32	1.90
1684020--1684044	13	1.9	13	100	0	50	32	16	16	36	1.90
1684053--1684173	52	2.3	52	97	0	224	34	18	18	28	1.94
1691128--1691646	27	18.8	28	81	6	508	26	30	13	29	1.94
1691152--1691615	82	5.7	82	81	4	508	25	31	13	29	1.93
1691620--1692364	28	25.3	29	80	8	626	31	29	16	22	1.96
1691125--1692364	28	43.2	28	79	8	598	29	30	15	25	1.96
1691618--1692364	89	8.5	88	82	5	777	31	29	16	21	1.95
1694009--1694065	20	2.8	21	89	5	82	38	14	15	31	1.87
1694635--1694732	49	2.1	49	83	7	123	24	26	18	30	1.98
1695455--1695510	20	2.8	20	86	5	69	32	19	14	33	1.92
1696417--1696455	21	1.9	21	89	5	62	23	10	12	53	1.69
1699101--1699162	22	2.8	23	74	13	58	61	0	1	37	1.06
1699116--1699149	6	5.8	6	86	6	52	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1699107--1699150	12	3.3	13	84	12	54	63	0	0	36	0.95
1700925--1700964	19	2.1	19	86	9	55	62	2	2	32	1.22
1705362--1705412	21	2.5	20	81	9	68	33	15	11	39	1.84
1705448--1705504	21	2.7	21	94	0	96	31	14	14	40	1.85
1706595--1706631	2	18.5	2	100	0	74	51	0	0	48	1.00
1706795--1706836	14	2.9	14	76	16	50	54	2	0	42	1.13
1708607--1708654	2	24.0	2	100	0	96	50	0	0	50	1.00
1715930--1715998	21	3.3	21	73	4	68	36	17	13	33	1.88
1719141--1719193	20	2.6	21	79	11	65	43	9	15	32	1.78
1724675--1724800	52	2.4	52	95	0	234	35	19	18	26	1.94

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