genome.fa.s488.2.7.7.80.10.50.1000.10.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: Scaffold488
Parameters: 2 7 7 80 10 50 1000
Length:  2093548

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

This is table  10  of  14  ( 1614 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)
1444398--1444535	44	3.2	44	78	5	163	44	15	16	23	1.85
1444398--1444607	44	4.8	44	67	15	121	44	14	18	21	1.86
1445605--1445645	12	3.3	13	83	10	59	4	12	2	80	0.97
1449803--1450217	166	2.5	162	81	7	446	40	12	11	35	1.78
1451298--1451353	23	2.3	24	81	9	60	8	16	1	73	1.17
1451321--1451367	23	2.0	24	87	8	69	12	8	4	74	1.19
1451680--1452216	166	3.2	166	82	7	583	47	8	11	32	1.71
1453902--1454092	51	3.8	51	80	1	213	46	18	7	27	1.77
1458147--1458176	11	2.7	11	100	0	60	60	20	10	10	1.57
1459027--1459164	51	2.7	51	86	2	188	41	13	16	28	1.86
1459200--1459254	20	2.7	21	80	5	67	32	18	10	38	1.85
1459199--1459335	41	3.3	41	84	10	172	30	18	10	40	1.83
1459221--1459335	21	5.6	21	87	9	166	30	18	9	41	1.82
1459464--1459537	21	3.6	20	81	7	69	31	17	12	39	1.86
1461824--1461879	20	2.8	20	94	0	94	37	10	21	30	1.87
1468040--1468491	76	5.9	76	82	3	482	27	23	12	36	1.91
1468032--1468491	151	3.0	149	83	6	550	27	23	12	36	1.91
1475805--1475853	26	1.9	25	91	4	80	20	10	16	53	1.72
1478555--1478620	32	2.1	32	91	0	105	37	12	10	39	1.77
1479251--1479380	61	2.1	61	88	0	188	37	12	26	23	1.90
1479328--1480083	98	7.5	98	76	8	507	32	16	26	24	1.96
1479493--1479819	49	6.7	49	84	2	343	32	15	27	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1479755--1479881	63	2.0	63	89	0	191	29	14	31	24	1.95
1479830--1480088	49	5.3	49	84	2	286	32	16	27	23	1.96
1479718--1479931	112	1.9	112	86	1	304	29	14	31	24	1.95
1479669--1479968	161	1.9	161	87	2	442	30	15	30	24	1.95
1480127--1480269	27	4.9	30	73	9	127	35	12	29	22	1.91
1480166--1480303	57	2.4	57	83	4	168	38	11	28	21	1.88
1480250--1480340	34	2.7	35	82	5	114	40	8	25	25	1.84
1480249--1480368	34	3.6	33	78	7	107	40	8	25	25	1.84
1480135--1480545	61	6.8	60	75	9	241	37	10	27	24	1.88
1480398--1480456	27	2.2	27	84	0	82	38	10	25	25	1.87
1480494--1480917	34	12.5	34	73	10	282	37	10	30	21	1.87
1480506--1480944	69	6.6	68	79	9	379	37	10	30	21	1.87
1480721--1480817	31	3.1	31	92	4	151	39	11	30	18	1.86
1480891--1480969	27	2.9	27	84	1	104	29	12	31	26	1.93
1480974--1481102	30	4.3	30	78	0	132	34	14	28	21	1.93
1480974--1481102	60	2.2	60	82	0	150	34	14	28	21	1.93
1480993--1481119	30	4.2	30	75	7	114	29	13	30	25	1.94
1482305--1482373	8	8.9	8	73	12	63	2	1	13	82	0.85
1482304--1482368	22	2.9	22	81	4	76	3	1	13	81	0.88
1482336--1482372	15	2.4	16	90	4	58	2	0	10	86	0.67
1485694--1485719	13	2.0	13	100	0	52	30	15	15	38	1.88
1485674--1485737	33	2.0	32	87	3	92	28	14	18	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494443--1494468	13	2.0	13	100	0	52	30	15	15	38	1.88
1496493--1496541	26	1.9	25	91	4	80	20	10	16	53	1.72
1499561--1499675	60	1.9	61	90	1	187	36	12	25	26	1.91
1499631--1499893	49	5.4	49	77	5	219	33	16	26	23	1.96
1499626--1499877	98	2.6	96	77	5	247	34	16	26	22	1.95
1499873--1499926	28	1.9	28	84	0	72	24	14	35	25	1.94
1499821--1499970	77	1.9	77	86	0	210	28	14	30	27	1.95
1499901--1500924	49	20.9	49	88	0	1292	29	16	30	23	1.96
1500966--1501019	28	1.9	28	96	0	99	33	14	29	22	1.94
1500986--1501601	34	18.9	33	72	12	368	37	11	28	21	1.88
1501196--1501513	132	2.4	134	80	7	360	37	10	29	22	1.87
1501483--1501628	27	5.1	27	74	14	105	34	12	31	21	1.90
1501510--1501655	61	2.4	59	85	6	195	34	13	32	19	1.91
1501451--1501629	88	2.1	87	84	2	234	35	12	31	21	1.90
1501631--1501870	30	7.9	30	79	6	250	31	15	30	21	1.95
1501627--1501870	90	2.7	91	82	9	291	32	15	30	21	1.94
1507997--1508702	61	11.4	61	80	8	635	28	25	16	29	1.97
1508095--1508569	257	1.9	252	83	5	623	28	25	16	30	1.96
1511834--1511913	28	2.9	27	83	5	97	31	26	11	31	1.91
1511870--1512190	76	4.2	76	81	5	371	29	22	12	35	1.91
1511876--1512190	151	2.1	152	85	4	422	29	22	11	36	1.90
1512126--1512217	48	1.9	48	86	2	132	27	19	10	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512174--1512378	79	2.6	79	86	6	274	28	25	11	35	1.90
1514544--1514620	20	3.8	20	82	0	109	32	14	11	41	1.82
1519678--1519756	40	2.0	40	97	0	149	31	1	36	30	1.66
1521854--1522211	80	4.5	79	75	6	253	31	29	8	30	1.87
1521835--1522130	158	1.9	159	81	4	366	32	29	8	30	1.86
1523018--1523071	20	2.7	20	82	2	63	40	7	14	37	1.74
1523128--1523265	51	2.7	52	85	2	181	31	13	12	43	1.80
1527398--1527560	35	4.8	34	72	6	125	45	12	22	20	1.84
1527397--1527612	100	2.1	102	79	3	222	46	12	21	19	1.83
1527499--1527696	67	3.0	67	71	12	176	46	14	21	17	1.84
1528017--1528137	55	2.2	56	80	12	135	27	16	12	43	1.84
1529488--1529543	21	2.7	21	85	0	76	48	12	10	28	1.74
1532191--1532257	27	2.5	27	100	0	134	32	37	13	16	1.88
1538109--1538174	20	3.3	20	68	10	64	46	0	24	28	1.52
1538098--1538206	39	2.8	39	86	6	114	49	0	22	28	1.50
1538122--1538190	20	3.5	20	69	9	61	52	0	15	31	1.44
1538141--1538209	20	3.5	20	71	11	70	46	0	20	33	1.51
1538150--1538217	19	3.5	19	67	16	50	45	0	29	25	1.54
1538116--1538222	39	2.7	39	82	2	135	47	0	24	28	1.52
1538724--1538798	21	3.8	20	78	7	71	32	16	16	36	1.90
1538827--1538925	20	5.7	20	67	30	91	40	12	17	30	1.86
1538847--1538905	13	5.0	13	72	19	58	37	13	15	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538826--1538925	33	3.0	33	97	0	191	40	12	17	31	1.85
1540780--1540843	33	2.0	32	90	9	103	28	12	20	39	1.89
1540800--1540825	13	2.0	13	100	0	52	30	15	15	38	1.88
1549573--1549598	13	2.0	13	100	0	52	30	15	15	38	1.88
1556931--1556980	23	2.2	23	100	0	100	46	0	34	20	1.51
1557504--1557568	32	2.0	32	87	3	94	27	16	15	40	1.89
1557533--1557590	19	2.9	19	87	5	80	32	15	17	34	1.91
1557619--1557683	33	2.0	32	88	11	96	32	13	20	33	1.91
1563816--1563882	33	2.0	33	88	0	98	34	11	13	40	1.81
1563836--1563860	13	1.9	13	100	0	50	36	16	16	32	1.90
1563923--1563947	13	1.9	13	100	0	50	32	16	16	36	1.90
1563956--1564080	52	2.4	52	93	0	205	36	18	17	28	1.94
1568820--1569373	31	17.9	31	80	6	525	23	27	14	33	1.94
1568820--1569367	183	3.0	183	86	3	724	23	27	14	33	1.94
1569348--1569552	27	7.0	27	70	16	106	20	28	13	37	1.90
1569400--1569552	60	2.5	59	79	2	171	20	30	11	37	1.88
1569427--1569591	33	5.1	33	74	11	135	18	31	10	38	1.86
1569601--1570100	87	5.7	88	81	3	562	27	26	17	28	1.98
1569601--1570100	175	2.9	174	82	3	592	27	26	17	28	1.98
1570023--1570304	49	5.7	49	79	5	253	24	22	17	35	1.95
1570027--1570298	98	2.7	98	81	3	296	25	22	17	34	1.95
1570015--1570330	150	2.1	150	77	4	334	24	23	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571168--1571198	13	2.5	13	94	5	55	29	16	12	41	1.85
1574216--1574719	63	8.1	62	81	7	542	24	26	15	33	1.95
1574226--1574811	30	19.0	31	74	8	367	24	27	15	33	1.95
1574219--1574736	30	16.8	30	79	6	473	24	27	15	33	1.95
1574778--1574981	33	6.1	34	77	3	173	18	29	11	40	1.86
1574781--1574968	66	2.8	66	79	5	191	19	27	12	40	1.88
1575015--1575371	51	7.7	49	74	16	282	27	24	17	30	1.97
1575200--1575618	39	10.0	40	70	20	128	28	25	18	28	1.98
1575257--1575324	21	3.2	21	65	19	50	26	26	16	30	1.96
1575338--1575618	39	6.9	38	71	15	197	27	25	19	27	1.99

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