genome.fa.s47.2.7.7.80.10.50.1000.11.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: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

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

This is table  11  of  15  ( 1735 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)
1395661--1395705	2	22.5	2	100	0	90	0	48	0	51	1.00
1395723--1395754	2	16.0	2	100	0	64	0	0	50	50	1.00
1396583--1396615	2	16.5	2	100	0	66	0	48	0	51	1.00
1399860--1399909	5	9.8	5	77	18	50	36	0	2	62	1.07
1399950--1399995	22	2.1	22	92	8	76	41	0	0	58	0.98
1400474--1400507	3	11.3	3	100	0	68	32	0	0	67	0.91
1403026--1403056	3	10.3	3	92	0	53	29	0	38	32	1.57
1403346--1403370	2	12.5	2	100	0	50	0	48	0	52	1.00
1403370--1403394	2	12.5	2	100	0	50	48	0	0	52	1.00
1405366--1405450	44	2.0	42	84	9	109	42	0	3	54	1.17
1405404--1405489	32	2.6	33	81	5	102	43	0	2	54	1.13
1405466--1405519	19	2.9	18	80	20	58	33	5	0	61	1.19
1405842--1405892	17	2.9	18	80	8	52	58	0	0	41	0.98
1405855--1405897	13	3.4	13	87	9	54	62	0	0	37	0.95
1406141--1406201	31	1.9	32	83	9	81	49	1	0	49	1.10
1406621--1406654	17	2.0	17	100	0	68	64	0	5	29	1.17
1407747--1407787	21	2.0	21	85	9	57	56	0	0	43	0.99
1409283--1409319	2	18.5	2	94	0	65	45	0	2	51	1.15
1410276--1410309	18	1.9	18	88	5	52	52	2	0	44	1.16
1410629--1410698	28	2.6	26	76	10	70	51	0	2	45	1.16
1411206--1411247	22	1.9	22	90	9	68	61	0	0	38	0.96
1411886--1411941	24	2.3	25	81	9	71	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)
1412942--1412990	19	2.7	18	84	12	64	42	4	2	51	1.32
1414696--1414726	3	10.3	3	100	0	62	32	0	35	32	1.58
1416186--1416228	7	6.1	7	78	10	52	81	0	0	18	0.69
1416191--1416235	11	4.2	11	78	21	51	80	0	0	20	0.72
1416186--1416232	18	2.6	18	87	9	69	80	0	0	19	0.70
1416185--1416232	8	6.6	8	79	18	52	79	0	0	20	0.74
1417028--1417064	2	18.5	2	100	0	74	51	0	0	48	1.00
1419206--1419259	17	2.8	19	81	16	67	59	3	0	37	1.15
1419973--1420016	20	2.2	20	84	4	54	43	0	2	54	1.12
1420607--1420681	38	2.0	38	89	0	114	37	1	1	60	1.14
1420649--1420810	91	1.9	85	81	14	199	40	3	2	53	1.32
1421235--1421277	16	2.6	17	82	13	54	39	2	2	55	1.25
1421948--1421981	17	2.0	17	100	0	68	35	23	23	17	1.95
1423731--1423910	90	2.0	90	96	0	333	32	19	14	33	1.92
1426118--1426162	14	3.3	13	85	14	56	44	0	0	55	0.99
1426123--1426163	14	2.8	15	81	7	57	41	0	0	58	0.98
1427838--1428013	34	5.1	34	89	6	266	20	35	11	32	1.88
1427838--1428157	70	4.3	70	81	14	358	20	34	11	33	1.89
1428022--1428143	37	3.4	36	85	7	176	18	34	13	34	1.89
1427927--1428099	87	2.0	88	94	1	303	20	32	13	32	1.91
1428040--1428157	34	3.4	33	86	11	173	22	33	11	32	1.90
1428022--1428157	71	1.9	70	92	1	227	19	34	12	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428178--1428715	49	10.8	49	82	3	603	25	26	16	31	1.97
1428178--1428656	98	4.9	97	92	2	737	25	26	17	31	1.97
1428178--1428656	195	2.4	196	91	2	766	25	26	17	31	1.97
1429585--1429651	33	2.0	33	88	0	98	34	11	13	40	1.81
1429605--1429629	13	1.9	13	100	0	50	36	16	16	32	1.90
1429694--1429718	13	1.9	13	100	0	50	32	16	16	36	1.90
1429727--1429843	52	2.2	52	96	0	216	35	17	17	29	1.93
1435227--1435261	18	1.9	18	88	11	54	45	5	17	31	1.71
1438262--1438305	7	6.1	7	80	15	54	79	0	0	20	0.73
1438262--1438307	13	3.8	13	75	16	53	78	0	0	21	0.76
1438262--1438328	29	2.3	29	85	10	84	73	0	0	26	0.84
1438262--1438309	23	2.1	23	84	7	62	79	0	0	20	0.74
1438253--1438419	11	14.6	11	69	15	74	62	1	2	33	1.15
1438285--1438392	6	18.7	6	68	23	63	62	0	1	34	1.12
1438269--1438371	17	6.4	17	69	16	69	66	0	1	31	1.02
1440887--1440953	27	2.5	26	77	17	75	37	1	1	59	1.16
1440944--1441116	91	1.9	92	90	1	276	39	6	3	50	1.45
1441768--1441864	51	1.9	51	91	0	158	41	12	14	31	1.83
1442959--1442998	15	2.6	16	88	8	64	60	0	0	40	0.97
1442948--1442999	22	2.4	21	81	9	61	53	0	0	46	1.00
1444913--1444961	19	2.7	18	84	12	64	51	2	4	42	1.32
1445451--1445538	44	2.0	45	95	2	160	32	14	22	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445945--1446034	11	8.6	10	72	20	60	53	0	1	45	1.07
1445970--1446010	16	2.5	16	88	4	55	48	0	2	48	1.14
1446664--1446705	22	1.9	22	90	9	68	38	0	0	61	0.96
1450333--1450378	17	2.7	17	75	21	51	56	0	0	43	0.99
1450304--1450384	28	3.0	27	72	13	67	51	0	1	46	1.08
1452246--1452288	13	3.4	13	87	9	54	37	0	0	62	0.95
1452653--1452725	32	2.2	33	85	2	94	56	2	0	41	1.14
1452720--1452773	19	2.7	21	83	11	60	59	0	0	40	0.98
1454780--1454821	2	21.0	2	90	0	66	45	0	50	4	1.23
1455096--1455126	12	2.6	12	94	0	53	25	38	6	29	1.81
1456234--1456262	14	2.0	15	93	6	51	72	0	0	27	0.85
1456630--1456684	21	2.9	18	79	12	65	67	0	0	32	0.91
1456627--1456690	33	1.9	33	87	0	92	65	0	0	34	0.93
1457500--1457527	3	9.3	3	100	0	56	67	0	0	32	0.91
1461616--1461812	91	2.2	90	90	7	310	50	2	6	41	1.39
1461833--1461895	26	2.4	26	86	0	90	57	0	4	38	1.20
1461801--1461877	37	2.1	37	90	7	122	57	1	2	38	1.21
1461833--1461907	26	2.9	26	80	11	84	57	0	5	37	1.22
1463218--1463271	17	2.8	19	81	16	67	37	0	3	59	1.15
1464317--1464489	11	15.3	11	66	20	72	34	2	1	61	1.19
1464317--1464498	28	6.6	28	69	14	105	33	2	1	62	1.20
1464367--1464486	52	2.3	53	80	10	135	33	3	0	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1468513--1468692	90	2.0	90	95	2	326	33	13	19	32	1.91
1471667--1471720	15	3.5	15	82	9	56	59	0	0	40	0.98
1471667--1471764	38	2.6	38	87	3	128	57	1	2	39	1.17
1472251--1472292	19	2.4	17	84	15	50	57	0	0	42	0.99
1474212--1474334	6	21.5	6	69	17	75	33	0	0	65	0.98
1474212--1474334	51	2.4	52	78	12	137	33	0	0	65	0.98
1474279--1474324	13	3.8	13	77	16	62	23	0	0	76	0.79
1474277--1474334	23	2.5	23	78	13	73	25	0	0	74	0.82
1476588--1476645	19	3.1	18	83	11	80	32	17	13	36	1.89
1476629--1476655	13	2.1	13	100	0	54	40	14	14	29	1.86
1476613--1476674	33	1.9	32	90	3	97	40	16	14	29	1.88
1476890--1476928	20	1.9	19	85	10	51	28	12	5	53	1.60
1478820--1478846	13	2.1	13	100	0	54	40	14	14	29	1.86
1485035--1485065	13	2.4	13	100	0	62	38	6	16	38	1.74
1504403--1506285	60	31.9	58	71	14	477	29	23	18	28	1.98
1504403--1506285	120	16.0	119	70	12	823	29	23	18	28	1.98
1504401--1506258	180	10.5	179	68	14	716	29	23	18	28	1.98
1504620--1505555	346	2.7	346	86	4	1296	29	23	18	28	1.98
1505314--1506285	60	16.4	59	76	10	679	28	23	19	28	1.98
1504966--1506152	467	2.5	465	87	2	1682	29	24	18	27	1.98
1511894--1512048	79	2.0	80	83	6	199	29	13	28	28	1.94
1512003--1512074	28	2.6	28	84	10	94	23	18	34	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512063--1512192	51	2.5	52	83	7	165	33	10	23	32	1.89
1514169--1514250	28	2.9	28	83	7	96	26	17	31	24	1.97
1514233--1514402	52	3.3	50	80	4	187	33	11	24	30	1.91
1514388--1514459	27	2.6	27	86	2	90	20	20	34	23	1.96
1514177--1514566	211	1.8	211	88	2	604	31	12	26	29	1.93
1516924--1516949	13	2.0	13	100	0	52	38	15	15	30	1.88
1516903--1516969	33	2.0	33	88	0	98	43	16	14	25	1.86
1516992--1517016	13	1.9	13	100	0	50	32	16	16	36	1.90
1518609--1518663	20	2.8	20	82	0	74	45	16	14	23	1.84
1518683--1518750	19	3.9	18	71	23	65	38	11	13	36	1.81

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