genome.fa.s498.2.7.7.80.10.50.1000.14.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: Scaffold498
Parameters: 2 7 7 80 10 50 1000
Length:  1804022

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

This is table  14  of  17  ( 1953 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)
1421976--1422032	30	1.9	30	85	0	78	7	17	28	47	1.73
1422047--1422098	22	2.4	22	83	0	68	15	13	21	50	1.78
1422177--1422275	45	2.2	45	90	0	153	22	0	22	55	1.44
1422177--1422305	45	2.9	45	83	4	136	23	0	21	54	1.50
1424544--1424594	27	2.0	27	84	7	70	45	0	0	54	0.99
1426475--1426509	13	2.8	13	91	4	54	51	0	0	48	1.00
1426438--1426524	45	1.9	45	81	9	106	44	1	3	50	1.26
1428511--1428731	108	2.0	108	83	3	275	39	16	22	21	1.92
1430750--1430789	15	2.5	16	88	8	55	57	0	0	42	0.98
1430750--1430792	16	2.6	17	85	10	63	55	0	0	44	0.99
1431872--1431920	17	2.8	17	78	3	53	2	28	4	65	1.22
1432368--1432412	16	2.7	16	86	6	54	0	22	0	77	0.76
1432368--1432431	19	3.2	19	79	14	58	1	18	1	78	0.92
1432507--1432549	3	14.3	3	100	0	86	67	0	0	32	0.91
1433715--1434320	310	2.0	310	89	0	933	30	21	14	33	1.93
1434990--1435036	22	2.1	23	84	11	62	80	6	10	2	0.96
1435711--1435753	20	2.2	20	86	0	59	74	0	23	2	0.93
1436128--1436162	2	17.5	2	93	0	61	45	0	2	51	1.16
1438902--1439029	46	2.8	46	86	2	168	56	2	5	35	1.35
1448151--1448200	20	2.4	20	83	6	55	56	0	2	42	1.11
1451435--1451474	15	2.6	16	84	8	55	30	10	2	57	1.45
1452139--1452201	26	2.4	27	84	7	76	46	3	1	49	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1453585--1453638	27	2.0	26	85	3	72	35	0	0	64	0.94
1453738--1453773	17	2.1	17	94	0	63	58	0	2	38	1.13
1455290--1455331	16	2.7	16	88	3	59	40	0	0	59	0.97
1455837--1455902	31	2.2	30	84	13	82	48	1	0	50	1.10
1455956--1455995	15	2.7	15	80	0	53	47	0	0	52	1.00
1456328--1456417	11	8.3	11	68	19	55	36	1	0	62	1.03
1456333--1456413	22	3.5	22	71	18	65	37	1	0	61	1.04
1456322--1456386	22	3.2	20	80	10	62	32	1	0	66	1.01
1456327--1456417	27	3.2	27	80	16	80	36	1	0	62	1.02
1456338--1456435	38	2.7	38	78	15	100	40	0	0	59	0.98
1458760--1458828	32	2.1	33	81	2	77	44	0	2	52	1.16
1459336--1459374	16	2.4	17	80	20	55	35	5	7	51	1.53
1459517--1459550	11	2.9	12	86	8	52	55	0	0	44	0.99
1459854--1460000	16	8.8	16	67	26	74	38	1	1	58	1.15
1459858--1459918	19	3.4	18	74	19	65	44	1	1	52	1.20
1459856--1459963	34	3.3	32	81	5	126	39	1	1	56	1.21
1459923--1460003	19	4.4	18	72	17	60	34	0	0	65	0.93
1459936--1460018	28	3.0	26	75	24	82	34	1	0	63	1.02
1461420--1461463	2	22.0	2	100	0	88	50	0	0	50	1.00
1463264--1463307	21	2.0	22	83	12	56	29	4	4	61	1.36
1465964--1466016	19	2.8	19	100	0	106	37	15	11	35	1.83
1474706--1474755	24	2.1	24	85	7	66	28	4	6	62	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1476166--1476493	165	2.0	166	92	0	541	41	15	19	23	1.89
1477557--1477598	19	2.2	19	87	8	59	64	0	0	35	0.94
1477557--1477610	19	3.2	18	70	29	55	66	0	0	33	0.92
1477658--1477682	5	5.0	5	100	0	50	40	20	0	40	1.52
1479407--1479445	19	2.1	19	90	0	60	61	0	5	33	1.18
1482314--1482342	2	14.5	2	100	0	58	48	0	0	51	1.00
1483615--1483679	32	2.0	32	85	5	87	50	1	0	47	1.10
1494329--1494417	27	3.2	29	76	12	98	56	0	1	42	1.06
1494347--1494417	29	2.3	30	81	13	83	56	0	1	42	1.08
1494366--1494417	23	2.2	24	80	16	65	57	0	0	42	0.98
1494329--1494416	11	7.9	11	70	19	58	56	0	1	42	1.06
1494615--1494682	34	2.1	32	84	13	86	58	0	1	39	1.07
1494612--1494684	32	2.3	32	81	9	87	60	0	1	38	1.06
1495568--1495640	24	3.0	24	71	28	64	45	0	1	53	1.09
1495805--1495839	6	5.7	6	86	6	52	31	0	0	68	0.90
1496054--1496144	37	2.3	41	80	18	120	39	1	0	59	1.05
1496097--1496162	26	2.4	28	80	12	82	40	3	0	56	1.15
1496132--1496192	22	2.9	21	72	16	54	36	6	0	57	1.25
1496621--1496704	29	2.8	30	78	8	91	44	0	2	53	1.13
1496621--1496703	30	2.8	28	85	7	94	43	0	2	54	1.13
1496958--1497008	23	2.2	24	85	3	68	45	1	0	52	1.12
1497444--1497490	17	2.8	16	87	12	60	55	0	4	40	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1497563--1497621	24	2.5	23	81	8	66	57	1	1	38	1.19
1497822--1497880	26	2.3	25	85	5	73	28	1	1	67	1.10
1497855--1497889	11	3.2	11	87	0	52	34	0	0	65	0.93
1497830--1497911	37	2.1	40	84	8	107	30	3	0	65	1.09
1498295--1498344	22	2.3	21	75	21	50	40	2	4	54	1.31
1499207--1499271	15	4.3	15	75	9	51	35	3	3	58	1.29
1499600--1499668	21	3.1	21	80	14	77	36	1	0	62	1.04
1499599--1499676	39	2.0	39	80	14	90	38	1	0	60	1.05
1499599--1499659	18	3.2	18	78	17	61	36	1	0	62	1.05
1500375--1500427	28	2.0	26	85	7	70	47	0	0	52	1.00
1500335--1500421	41	2.1	41	79	10	99	43	0	0	56	0.99
1502605--1502664	17	3.4	17	71	17	50	30	1	0	68	0.99
1502614--1502666	20	2.8	19	83	11	74	30	1	0	67	1.01
1503211--1503290	18	4.6	19	70	25	52	47	0	0	52	1.00
1503209--1503300	16	5.6	16	71	20	57	44	0	0	55	0.99
1503220--1503300	32	2.5	33	86	8	112	45	0	0	54	0.99
1503287--1503344	26	2.2	27	90	9	93	29	0	0	70	0.87
1503951--1504005	11	4.5	12	75	18	51	30	1	0	67	1.01
1503952--1503999	13	3.6	14	77	8	55	27	2	0	70	0.98
1504205--1504268	22	3.1	20	70	25	53	48	0	1	50	1.10
1504238--1504290	14	3.5	14	74	18	52	47	0	0	52	1.00
1504239--1504291	16	3.3	16	75	19	65	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504229--1504300	32	2.2	32	82	4	92	51	0	1	47	1.09
1504297--1504340	15	3.0	15	81	15	56	52	0	0	47	1.00
1505076--1505105	13	2.2	14	94	5	53	33	0	0	66	0.92
1505043--1505110	18	3.9	17	77	11	66	35	4	0	60	1.17
1505640--1505681	21	2.0	22	90	4	68	26	23	33	16	1.96
1506113--1506153	17	2.4	18	80	12	50	63	2	0	34	1.08
1506482--1506519	15	2.5	15	91	0	58	36	0	2	60	1.11
1506789--1506829	2	20.5	2	100	0	82	48	0	0	51	1.00
1509181--1509216	15	2.3	15	90	4	54	38	0	0	61	0.96
1509131--1509218	34	2.5	35	75	21	85	39	2	0	57	1.11
1509963--1510009	23	2.0	23	83	4	58	59	0	0	40	0.97
1509978--1510015	19	2.0	20	89	5	60	50	0	0	50	1.00
1510472--1510515	23	1.9	23	90	0	70	22	13	9	54	1.67
1510651--1510690	21	1.9	21	85	10	55	60	2	0	37	1.11
1511576--1511640	34	1.9	34	93	0	112	18	12	4	64	1.43
1512113--1512164	2	26.0	2	96	0	95	50	1	0	48	1.12
1517277--1517305	11	2.5	12	94	5	51	62	0	0	37	0.96
1517277--1517309	11	2.8	12	86	9	50	60	0	0	39	0.97
1517640--1517685	14	3.4	14	81	6	58	50	0	2	47	1.13
1519153--1519219	27	2.5	26	81	13	75	38	0	1	59	1.06
1519637--1519677	14	2.8	14	82	10	55	48	0	0	51	1.00
1522970--1522994	13	1.9	13	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1526724--1526759	2	18.0	2	100	0	72	50	0	0	50	1.00
1528765--1528848	45	2.0	41	83	9	105	63	0	1	35	1.03
1528790--1528850	21	2.9	21	83	9	72	68	0	1	29	0.99
1529455--1529506	27	1.9	28	88	7	81	50	3	3	42	1.39
1529455--1529513	27	2.2	26	84	6	73	49	5	5	40	1.47
1534268--1534317	23	2.2	23	88	0	73	30	12	20	38	1.88
1534326--1534358	2	16.5	2	100	0	66	0	51	0	48	1.00
1534825--1534856	2	16.0	2	93	0	55	46	3	0	50	1.17
1538688--1538738	25	2.0	25	85	7	68	37	1	1	58	1.20
1538760--1538794	18	1.9	18	88	11	54	42	2	0	54	1.15

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