genome.fa.s169.2.7.7.80.10.50.1000.11.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: Scaffold169
Parameters: 2 7 7 80 10 50 1000
Length:  2015121

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

This is table  11  of  14  ( 1635 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)
1537213--1537264	3	17.3	3	100	0	104	32	0	0	67	0.91
1537417--1537472	26	2.1	27	90	9	89	53	0	0	46	1.00
1537430--1537480	22	2.4	21	81	15	61	52	0	0	47	1.00
1537569--1537611	16	2.6	16	79	13	52	62	6	4	25	1.40
1538455--1538492	19	2.0	19	85	10	51	52	0	0	47	1.00
1545201--1545255	23	2.4	23	75	6	58	43	0	5	50	1.25
1545307--1545365	27	2.2	27	81	6	66	42	0	3	54	1.17
1545336--1545388	20	2.5	20	79	14	63	50	1	1	45	1.23
1545732--1545806	22	3.0	23	76	16	62	44	1	0	54	1.08
1547581--1547626	19	2.5	19	75	10	51	60	0	0	39	0.97
1547618--1547651	17	2.1	17	94	5	61	50	0	0	50	1.00
1547530--1547640	30	3.7	30	77	16	106	53	0	5	41	1.24
1547809--1547865	16	3.3	17	78	7	53	47	0	0	52	1.00
1547834--1547871	14	2.6	15	83	8	51	42	0	0	57	0.98
1547861--1547901	19	2.2	20	87	12	61	31	0	0	68	0.90
1547875--1547908	11	3.2	11	91	4	52	32	0	0	67	0.91
1548042--1548092	17	3.2	16	77	20	54	37	0	1	60	1.08
1548308--1548369	22	2.9	20	73	21	54	51	1	0	46	1.10
1549867--1549964	47	2.1	46	80	17	105	39	7	0	53	1.29
1550904--1550952	14	3.4	14	83	10	55	63	0	2	34	1.06
1551100--1551138	10	3.9	10	83	10	53	23	0	0	76	0.78
1552297--1552323	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554899--1554938	18	2.2	18	90	0	62	60	2	2	35	1.24
1554822--1554920	44	2.3	41	75	11	94	60	0	0	39	0.97
1555300--1555364	27	2.4	26	80	10	76	61	1	1	35	1.15
1555297--1555364	9	7.6	9	71	15	52	61	1	1	35	1.14
1555120--1555427	158	1.9	158	94	0	535	48	3	5	42	1.44
1556815--1556854	21	1.9	21	90	10	64	40	0	0	60	0.97
1558877--1558930	14	3.5	15	82	12	56	61	0	1	37	1.07
1558886--1558932	16	2.6	19	83	12	64	61	0	2	36	1.08
1558930--1558997	30	2.2	31	86	7	93	58	0	1	39	1.07
1559066--1559091	8	3.2	8	100	0	52	11	0	0	88	0.52
1561811--1561839	14	2.0	15	93	6	51	20	13	27	37	1.91
1563271--1563641	117	3.2	117	88	0	555	30	17	15	35	1.92
1563431--1563811	209	1.8	209	86	2	550	30	15	16	36	1.90
1564646--1564730	24	3.5	24	80	0	107	28	20	24	27	1.99
1564646--1564738	48	1.9	48	88	0	141	30	19	23	26	1.98
1564654--1564752	48	2.1	48	84	3	128	29	17	26	27	1.97
1565252--1565305	19	2.9	19	86	8	67	44	3	11	40	1.58
1565463--1565505	20	2.3	18	88	8	59	20	6	0	72	1.08
1565886--1565925	14	2.9	14	80	0	53	37	20	12	30	1.89
1566209--1566240	8	4.0	8	100	0	64	12	0	0	87	0.54
1566462--1566496	14	2.5	14	95	0	61	28	22	22	25	1.99
1573344--1573386	22	1.9	23	85	4	61	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573377--1573419	18	2.4	18	80	3	52	37	0	0	62	0.95
1573780--1574037	50	5.2	50	90	0	394	30	19	19	30	1.97
1574723--1574818	30	3.2	30	86	2	131	53	2	1	43	1.19
1575035--1575116	29	2.9	27	82	13	71	45	0	1	53	1.08
1575047--1575116	29	2.4	30	86	11	101	42	0	0	57	0.99
1577034--1577066	3	11.0	3	100	0	66	66	0	0	33	0.92
1582495--1582572	40	2.0	40	100	0	156	41	23	10	25	1.86
1582581--1582652	33	2.2	34	87	7	105	36	2	4	56	1.33
1582782--1582874	38	2.5	35	78	11	96	35	11	13	38	1.82
1584308--1584344	15	2.4	16	86	13	51	0	32	10	56	1.34
1584476--1584519	21	2.1	21	82	0	52	38	2	18	40	1.63
1587031--1587071	20	2.0	20	86	9	57	53	0	2	43	1.13
1587056--1587107	21	2.3	23	75	21	56	59	0	1	38	1.08
1587173--1587211	20	2.0	20	84	0	51	71	2	0	25	0.98
1587544--1587575	16	2.0	16	93	0	55	46	0	0	53	1.00
1589305--1589373	11	6.4	11	71	20	56	40	0	0	59	0.97
1589306--1589380	24	3.0	26	81	12	88	41	0	0	58	0.98
1589608--1589663	22	2.5	24	75	22	66	48	0	0	51	1.00
1589624--1589666	5	8.6	5	90	10	54	41	0	0	58	0.98
1590085--1590126	8	5.0	8	81	18	50	38	2	0	59	1.10
1590976--1591031	11	5.0	11	76	10	51	67	1	0	30	1.01
1590986--1591044	18	3.4	17	75	17	59	64	1	0	33	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1592095--1592125	13	2.4	13	100	0	62	48	0	0	51	1.00
1592391--1592429	17	2.2	18	90	4	62	53	2	0	43	1.14
1592743--1592805	10	6.2	10	75	15	58	23	1	0	74	0.90
1592740--1592803	31	2.1	31	96	0	119	25	1	0	73	0.92
1592788--1592849	21	2.9	23	79	15	62	43	0	1	54	1.09
1592813--1592867	21	2.5	22	76	5	58	49	1	0	49	1.11
1593651--1593703	16	3.3	16	70	0	52	66	5	3	24	1.31
1596035--1596257	118	1.9	118	91	0	365	44	3	7	44	1.48
1596239--1596291	23	2.2	24	80	6	63	54	0	0	45	0.99
1596249--1596293	23	1.9	23	90	4	72	48	0	0	51	1.00
1596049--1596290	118	2.1	118	82	5	285	47	2	5	44	1.41
1596884--1596934	17	3.1	17	80	8	61	62	0	3	33	1.13
1596892--1596935	22	2.0	23	86	4	63	68	0	2	29	1.02
1599680--1599737	20	2.9	21	78	14	68	48	1	0	50	1.11
1599772--1599843	25	2.9	25	78	8	85	54	0	0	45	0.99
1599779--1599860	25	3.3	24	71	21	71	52	0	0	47	1.00
1600189--1600271	22	3.6	24	74	14	75	59	0	0	40	0.98
1600200--1600273	7	10.0	7	71	16	51	56	0	0	43	0.99
1600193--1600257	16	4.3	16	65	21	50	58	0	0	41	0.98
1600196--1600289	44	2.1	45	98	2	181	56	0	0	43	0.99
1600217--1600272	28	2.0	29	86	10	80	55	0	0	44	0.99
1600201--1600288	16	5.8	16	77	17	89	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1601541--1601589	21	2.3	21	86	10	64	48	0	0	51	1.00
1603881--1603936	18	3.1	19	79	5	62	41	1	0	57	1.09
1607362--1607402	17	2.4	18	80	12	50	43	2	0	53	1.13
1608561--1608632	36	2.0	37	84	10	96	48	1	0	50	1.09
1613633--1613689	21	2.8	21	83	2	80	36	14	15	33	1.88
1613674--1613698	13	1.9	13	100	0	50	36	16	16	32	1.90
1613869--1613941	20	3.7	20	88	0	110	39	15	9	35	1.80
1616239--1616283	21	2.1	21	100	0	90	60	13	0	26	1.34
1620558--1620591	3	11.3	3	87	0	50	29	29	0	41	1.57
1624141--1624175	15	2.3	15	85	0	52	57	8	0	34	1.29
1624301--1624370	8	8.0	8	77	18	52	12	4	1	81	0.90
1624303--1624378	20	3.7	20	73	15	57	14	3	1	80	0.92
1624316--1624360	13	3.5	12	88	11	63	6	4	2	86	0.76
1624909--1624976	12	5.6	12	76	16	52	66	0	1	32	1.01
1624923--1624976	24	2.3	24	81	12	67	64	0	1	33	1.04
1624924--1624974	12	4.2	12	79	20	54	66	0	1	31	1.03
1625191--1625234	19	2.4	19	84	3	54	70	0	6	22	1.11
1625686--1625744	29	2.1	28	80	3	64	50	0	5	44	1.24
1627852--1627894	22	2.0	22	90	0	68	39	11	6	41	1.68
1627941--1627975	18	1.9	18	94	0	61	42	2	14	40	1.60
1627941--1627980	18	2.4	17	87	8	55	42	2	12	42	1.56
1627976--1628021	16	2.9	16	86	0	56	28	0	2	69	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627993--1628044	16	3.3	15	81	7	59	40	1	0	57	1.10
1628044--1628086	15	2.8	15	83	16	61	41	0	0	58	0.98
1628026--1628101	35	2.2	34	78	19	86	43	0	0	56	0.99
1628443--1628480	14	2.9	14	84	11	53	28	0	0	71	0.87
1631538--1631581	13	3.5	13	84	6	56	50	0	0	50	1.00
1632595--1632679	9	8.4	11	69	20	53	40	0	0	60	0.97
1632597--1632696	14	8.2	13	73	16	56	41	0	0	59	0.98
1632600--1632694	21	4.8	20	72	24	78	41	0	0	58	0.98
1632595--1632689	17	5.7	16	70	20	61	40	0	0	60	0.97
1632595--1632712	27	4.3	26	71	15	78	40	0	0	58	1.04

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