genome.fa.s63.2.7.7.80.10.50.1000.9.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

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

This is table  9  of  16  ( 1834 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)
1352695--1352721	2	13.5	2	100	0	54	51	0	0	48	1.00
1352749--1352778	15	1.9	16	93	6	53	53	0	0	46	1.00
1352744--1352798	28	1.9	30	85	10	80	54	0	0	45	0.99
1352767--1353243	175	2.7	173	83	5	543	42	3	5	48	1.44
1353532--1353588	17	3.1	17	76	19	53	40	0	1	57	1.09
1353773--1353813	22	1.9	21	85	5	55	46	0	0	53	1.00
1353872--1353928	28	2.0	28	96	0	105	24	8	14	52	1.69
1354149--1354272	5	24.4	5	66	15	58	61	0	3	35	1.12
1354140--1354207	24	3.0	23	87	6	93	57	0	0	42	0.98
1354147--1354211	11	5.8	11	79	15	71	58	0	0	41	0.98
1354163--1354273	49	2.2	49	79	7	118	62	0	3	34	1.13
1354781--1354849	28	2.5	28	73	21	72	49	0	0	50	1.00
1355893--1355932	20	2.0	20	90	0	62	57	0	2	40	1.12
1357961--1358061	37	2.9	34	80	8	121	31	0	27	39	1.63
1362597--1362702	34	3.0	34	77	8	113	31	1	28	38	1.68
1362668--1362720	22	2.4	22	93	0	88	32	3	26	37	1.74
1366074--1366098	12	2.1	12	100	0	50	76	16	8	0	1.02
1370946--1370973	3	9.3	3	100	0	56	67	0	32	0	0.91
1371852--1371932	20	3.8	20	73	16	56	53	0	0	46	1.00
1371856--1372028	25	7.4	25	68	21	76	54	0	0	45	0.99
1371900--1371962	20	3.2	20	81	16	78	66	0	0	33	0.92
1371916--1372001	10	8.6	10	68	18	54	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371897--1372007	39	2.7	39	82	9	116	59	0	0	40	0.97
1371952--1372013	17	3.8	17	77	18	69	51	0	0	48	1.00
1371902--1372017	31	3.6	33	80	11	118	58	0	0	41	0.98
1371901--1372019	39	2.9	39	79	9	98	57	0	0	42	0.98
1372196--1372240	22	2.1	22	87	4	65	55	0	2	42	1.12
1372230--1372327	25	3.9	25	75	17	80	54	0	3	42	1.16
1372230--1372313	23	3.4	24	76	15	73	54	0	2	42	1.13
1372322--1372363	16	2.6	16	82	17	59	78	0	0	21	0.75
1372351--1372433	23	3.8	21	70	19	62	56	1	2	39	1.20
1372383--1372434	25	2.2	23	83	13	61	57	0	1	40	1.10
1372395--1372486	33	2.7	35	80	11	102	58	0	1	40	1.05
1372571--1372610	22	1.9	22	90	10	66	42	0	0	57	0.98
1372571--1372627	22	2.7	22	81	10	57	43	0	0	56	0.99
1376430--1376456	2	13.5	2	100	0	54	51	48	0	0	1.00
1376648--1376677	2	15.0	2	92	0	51	50	3	0	46	1.18
1378243--1378300	16	3.7	15	76	17	55	58	0	0	41	0.98
1378459--1378488	2	15.0	2	100	0	60	50	0	0	50	1.00
1378693--1378739	17	2.8	18	87	12	66	48	0	0	51	1.00
1378690--1378746	17	3.1	19	82	14	57	47	0	0	52	1.00
1378711--1378758	21	2.3	21	88	0	69	39	0	0	60	0.97
1379873--1379898	3	8.7	3	100	0	52	65	0	0	34	0.93
1380426--1380490	20	3.2	20	84	6	69	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1380474--1380504	14	2.1	15	94	5	55	58	0	0	41	0.98
1380459--1380499	20	2.0	20	100	0	82	60	0	0	39	0.96
1380467--1380516	20	2.5	20	83	0	55	62	0	0	38	0.96
1381151--1381211	30	2.0	30	96	0	113	32	13	21	32	1.91
1381970--1381995	2	13.0	2	100	0	52	50	0	0	50	1.00
1383360--1383411	22	2.4	22	83	0	68	55	15	1	26	1.50
1385400--1385434	18	1.9	18	94	0	61	22	17	34	25	1.96
1386646--1386680	17	2.1	17	100	0	70	42	0	22	34	1.54
1388273--1388317	22	2.0	22	86	0	63	55	22	2	20	1.54
1389178--1389241	33	2.0	31	87	6	92	56	0	4	39	1.20
1390186--1390236	2	25.5	2	91	0	84	49	0	3	47	1.20
1400277--1400316	19	2.1	19	100	0	80	20	40	5	35	1.74
1400802--1400848	20	2.4	19	83	13	60	51	2	0	46	1.13
1400802--1400857	21	2.8	20	86	7	71	50	1	0	48	1.11
1401047--1401098	10	4.8	12	77	15	51	67	1	0	30	1.02
1402227--1402309	29	2.9	28	85	5	103	37	2	1	59	1.19
1402240--1402332	29	3.2	29	83	6	107	41	6	0	51	1.27
1402220--1402332	59	1.9	59	81	3	138	39	5	0	53	1.29
1402943--1402976	2	17.0	2	100	0	68	50	0	0	50	1.00
1403283--1403315	9	3.8	9	96	4	59	30	0	0	69	0.88
1409317--1409351	4	8.8	4	100	0	70	77	22	0	0	0.78
1414024--1414070	24	2.0	24	87	8	69	48	2	0	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1414591--1414656	34	1.9	35	84	3	89	62	0	0	37	0.96
1414743--1414783	11	4.0	10	85	14	57	70	0	0	29	0.87
1414775--1414823	18	2.8	18	85	11	59	57	0	0	42	0.99
1414783--1414836	18	3.0	18	86	10	67	51	0	0	48	1.00
1415263--1415418	35	4.2	35	69	20	102	56	0	1	41	1.10
1415637--1415691	20	2.6	21	74	5	58	52	0	0	47	1.00
1421225--1421269	13	3.5	13	78	6	56	64	0	0	35	0.94
1421597--1421632	2	18.0	2	100	0	72	50	0	0	50	1.00
1425781--1425823	16	2.7	15	86	10	59	39	0	9	51	1.34
1425862--1425911	21	2.4	22	83	10	68	60	0	0	40	0.97
1427032--1427067	7	5.0	7	93	6	63	30	0	0	69	0.89
1432014--1432058	19	2.3	19	84	7	54	46	0	0	53	1.00
1432968--1433039	31	2.4	31	83	6	94	65	0	1	33	1.02
1432963--1433037	20	3.7	20	81	12	73	65	0	1	33	1.01
1432961--1433140	11	17.5	11	71	23	83	62	3	1	32	1.18
1432969--1433145	19	9.3	18	69	18	101	63	3	1	32	1.18
1433071--1433145	6	12.8	6	73	18	61	61	0	1	37	1.05
1433071--1433144	28	2.6	28	87	12	107	62	0	1	36	1.04
1433086--1433142	23	2.7	21	80	17	64	61	0	1	36	1.07
1433254--1433313	12	5.4	11	79	18	54	51	0	0	48	1.00
1433222--1433338	62	1.9	62	81	10	141	52	0	1	46	1.11
1434199--1434223	13	1.9	13	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1434933--1434997	30	2.2	31	80	8	80	35	0	0	64	0.94
1434929--1434997	17	4.2	18	67	27	55	34	0	0	65	0.93
1434945--1434989	9	4.6	10	77	22	51	31	0	0	68	0.89
1436904--1436933	13	2.2	14	94	5	53	33	0	0	66	0.92
1437277--1437322	21	2.0	23	88	12	69	39	4	0	56	1.19
1441594--1441635	21	2.0	21	86	13	59	61	0	0	38	0.96
1443658--1443740	25	3.4	25	76	20	79	40	0	0	59	0.98
1443688--1443735	22	2.2	22	81	7	53	39	0	0	60	0.97
1443967--1444035	16	4.2	16	72	20	54	40	0	1	57	1.07
1443967--1444037	32	2.2	33	84	2	99	40	0	1	57	1.07
1444078--1444116	2	19.5	2	100	0	78	51	0	0	48	1.00
1444601--1444663	27	2.2	28	78	18	67	41	1	3	53	1.26
1444628--1444703	33	2.3	33	84	8	93	42	1	2	53	1.23
1443569--1444869	642	2.0	639	84	6	1674	39	7	7	45	1.62
1444871--1444909	2	19.5	2	83	0	51	48	0	2	48	1.15
1445134--1445168	16	2.1	17	89	5	54	60	0	0	40	0.97
1451604--1451658	25	2.3	25	84	12	71	29	0	1	69	0.99
1451599--1451663	25	2.6	26	73	22	68	32	0	1	66	1.01
1455131--1455155	10	2.5	10	100	0	50	92	0	0	8	0.40
1455175--1455213	11	3.5	11	89	6	60	20	5	43	30	1.73
1455178--1455213	12	3.1	12	92	4	56	19	5	41	33	1.75
1455504--1455530	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1456065--1456108	23	1.9	23	81	9	54	79	4	13	2	0.98
1457457--1457530	23	3.2	23	71	9	62	51	0	0	48	1.00
1462766--1462815	25	2.0	26	84	11	68	44	0	2	54	1.11
1462804--1462843	11	3.6	11	86	10	55	30	0	2	67	1.04
1462888--1462933	20	2.3	20	85	10	60	39	0	10	50	1.38
1462888--1462927	20	2.0	20	90	4	64	37	0	10	52	1.35
1463291--1463332	18	2.3	18	87	0	66	50	0	0	50	1.00
1463295--1463332	6	6.5	6	82	17	53	47	0	0	52	1.00
1463394--1463435	19	2.2	20	91	4	68	50	0	0	50	1.00
1464064--1464130	20	3.5	20	66	22	54	59	0	0	40	0.97

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