genome.fa.s170.2.7.7.80.10.50.1000.10.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: Scaffold170
Parameters: 2 7 7 80 10 50 1000
Length:  1632119

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

This is table  10  of  11  ( 1308 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)
1412995--1413093	50	1.9	54	84	12	136	43	0	1	55	1.06
1413235--1413272	10	3.9	10	87	12	53	76	0	0	23	0.79
1413235--1413280	19	2.5	19	77	22	53	76	0	0	23	0.79
1413236--1413350	9	12.1	10	70	18	68	66	1	0	31	1.08
1413319--1413363	23	2.0	21	83	8	54	68	0	4	26	1.08
1417559--1417610	19	2.7	19	85	11	63	53	3	1	40	1.30
1418666--1418745	31	2.6	28	75	24	74	40	1	0	58	1.06
1423522--1423561	2	20.0	2	94	0	71	52	0	47	0	1.00
1423800--1423874	36	2.1	36	100	0	150	29	9	24	37	1.86
1426215--1426261	2	23.5	2	100	0	94	51	0	0	48	1.00
1426979--1427159	92	1.9	93	87	3	265	53	11	19	16	1.72
1428887--1428925	2	20.0	2	84	5	53	46	0	5	48	1.24
1435543--1435585	17	2.6	17	85	3	52	44	0	0	55	0.99
1435792--1435850	25	2.4	25	76	0	64	45	0	3	50	1.18
1435868--1435910	12	3.2	13	81	18	52	32	0	9	58	1.30
1435966--1436020	20	2.7	21	81	13	62	41	0	0	58	0.98
1435981--1436020	20	1.9	22	90	10	66	42	0	0	57	0.98
1436919--1436964	19	2.3	20	82	10	60	58	2	0	39	1.10
1437272--1437363	42	2.2	40	78	12	98	51	0	0	48	1.00
1437893--1437934	17	2.5	17	84	7	50	40	7	0	52	1.29
1438244--1438367	65	1.9	65	83	3	160	44	8	4	42	1.55
1438561--1438593	2	16.5	2	93	0	57	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1440352--1440394	22	2.0	22	86	9	61	37	20	13	27	1.91
1444747--1444788	22	1.9	22	85	9	59	42	0	0	57	0.99
1445181--1445220	20	2.0	20	86	13	57	35	0	0	65	0.93
1445194--1445258	34	1.9	34	84	12	89	49	0	0	50	1.00
1446003--1446062	22	2.8	23	80	12	65	43	1	1	53	1.20
1447223--1447261	17	2.3	17	86	0	51	58	0	0	41	0.98
1447277--1447324	25	2.0	24	88	12	71	50	2	0	47	1.12
1447277--1447339	24	2.6	25	78	19	71	52	1	0	46	1.10
1447304--1447383	39	2.0	40	92	2	135	56	0	1	42	1.07
1447509--1447544	17	2.1	17	89	0	54	66	0	0	33	0.92
1447493--1447602	35	3.1	35	73	15	102	56	0	0	43	0.99
1447515--1447599	27	3.1	28	76	15	74	56	0	0	43	0.99
1448148--1448185	20	1.9	20	89	10	60	68	0	0	31	0.90
1448379--1448417	2	19.5	2	83	0	51	46	5	0	48	1.24
1448810--1448851	19	2.3	19	79	4	50	64	0	0	35	0.94
1449545--1449605	30	2.0	31	81	9	72	49	0	1	49	1.10
1449876--1449957	30	2.8	28	80	12	94	45	1	0	53	1.08
1449927--1449971	22	2.0	24	82	8	58	46	4	0	48	1.22
1450538--1450593	23	2.4	22	85	8	67	51	0	1	46	1.11
1450552--1450611	18	3.3	18	76	4	50	48	0	1	50	1.11
1450630--1450675	18	2.5	18	82	3	56	41	0	0	58	0.98
1450746--1450817	13	4.6	15	70	26	51	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450767--1450796	5	6.0	5	100	0	60	60	0	0	40	0.97
1452948--1453002	20	2.8	20	71	23	53	41	0	0	58	0.98
1453292--1453353	14	4.3	14	80	8	70	64	0	0	35	0.94
1453291--1453375	21	4.0	21	76	7	73	61	0	0	38	0.96
1453292--1453353	7	8.6	7	80	7	52	64	0	0	35	0.94
1453296--1453361	30	2.2	30	83	5	80	60	0	0	39	0.97
1453301--1453355	7	7.6	7	84	8	65	61	0	0	38	0.96
1453346--1453384	21	1.9	21	89	5	62	53	0	2	43	1.14
1454037--1454131	50	1.9	48	81	8	111	56	0	0	43	0.99
1455510--1455605	30	3.2	30	72	0	93	43	3	8	44	1.50
1455773--1455828	20	2.7	21	83	2	78	51	0	3	44	1.18
1457890--1457922	17	1.9	17	93	0	57	48	3	0	48	1.17
1458269--1458307	20	1.9	21	89	5	62	46	2	0	51	1.14
1458279--1458363	44	2.0	41	84	11	109	45	0	0	54	1.00
1459270--1459308	20	2.0	20	90	5	62	64	0	0	35	0.94
1459370--1459423	18	3.2	18	74	10	60	68	0	0	31	0.90
1459411--1459460	14	3.6	14	73	26	52	48	0	2	50	1.12
1459439--1459518	9	9.2	9	70	21	64	42	0	0	57	0.98
1459439--1459518	18	4.7	18	77	16	80	42	0	0	57	0.98
1459432--1459490	24	2.6	23	84	7	75	45	0	0	54	0.99
1460112--1460156	20	2.2	20	80	0	54	60	0	2	37	1.09
1460086--1460176	27	3.2	29	74	13	75	54	0	1	43	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1460128--1460170	20	2.2	20	84	16	54	60	0	0	39	0.97
1460518--1460544	7	3.9	7	100	0	54	14	0	0	85	0.61
1461083--1461133	14	3.8	13	78	14	50	52	0	1	45	1.12
1461319--1461416	18	5.0	20	67	22	57	55	1	0	43	1.06
1461355--1461473	22	5.4	21	74	13	80	60	0	0	38	1.03
1461355--1461447	6	15.0	6	69	22	59	60	1	0	38	1.04
1461355--1461473	16	7.5	16	69	16	61	60	0	0	38	1.03
1461412--1461450	11	3.4	12	79	13	55	66	0	0	33	0.92
1461300--1461461	56	3.0	53	72	17	138	58	0	0	40	1.02
1465924--1465948	13	1.9	13	100	0	50	56	0	8	36	1.29
1470534--1470605	10	6.6	10	71	22	56	38	0	0	61	0.96
1470562--1470615	15	3.4	15	78	16	56	33	0	0	66	0.92
1476240--1476265	2	13.0	2	100	0	52	50	0	0	50	1.00
1477934--1477969	17	2.1	17	94	0	63	50	0	2	47	1.15
1478827--1478916	43	2.0	42	81	8	99	48	1	0	50	1.08
1480852--1480882	16	1.9	16	93	0	53	54	0	0	45	0.99
1481215--1481248	17	1.9	18	94	5	61	0	14	0	85	0.60
1482125--1482254	16	8.0	16	70	9	84	56	2	0	41	1.12
1483324--1483353	13	2.3	13	94	0	51	40	0	3	56	1.16
1483909--1483963	9	6.1	9	77	8	58	38	0	3	58	1.16
1484655--1484689	13	2.7	13	95	0	61	40	2	0	57	1.14
1484716--1484757	19	2.2	19	86	0	57	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488709--1488754	19	2.4	18	85	7	56	32	2	2	63	1.19
1488710--1488776	25	2.5	27	76	16	68	32	1	1	64	1.12
1488722--1488755	12	2.8	12	86	4	50	35	0	0	64	0.94
1492652--1492697	21	2.1	22	84	4	58	30	19	30	19	1.97
1493951--1494006	25	2.2	26	78	12	64	57	0	0	42	0.99
1493929--1494009	18	4.2	20	66	13	53	53	0	0	46	1.00
1494739--1494785	16	3.3	14	80	13	51	57	0	0	42	0.98
1496078--1496108	16	1.9	16	93	0	53	54	0	0	45	0.99
1496441--1496473	16	2.0	17	94	5	59	0	15	0	84	0.61
1497359--1497407	23	2.2	23	82	7	66	63	0	0	36	0.95
1497372--1497421	5	10.4	5	75	16	52	60	0	0	40	0.97
1497398--1497458	31	1.9	32	86	6	88	50	3	1	44	1.28
1499953--1499988	18	1.9	19	88	5	56	61	0	0	38	0.96
1501916--1501969	23	2.3	24	84	9	67	40	1	1	55	1.21
1501922--1501969	24	2.1	24	84	7	64	39	2	0	58	1.10
1502027--1502072	15	2.9	15	81	12	56	50	2	0	47	1.13
1502027--1502073	16	2.9	17	87	9	64	51	2	0	46	1.13
1502533--1502568	17	2.1	17	89	0	54	36	0	0	63	0.94
1504257--1504300	19	2.3	18	92	7	70	34	0	2	63	1.07
1504270--1504318	25	2.0	25	84	8	64	34	0	0	65	0.93
1504279--1504340	28	2.2	29	80	8	74	40	0	0	59	0.97
1505189--1505261	30	2.5	30	88	2	103	47	2	1	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505778--1505804	2	13.5	2	100	0	54	48	0	0	51	1.00
1506883--1506935	16	3.2	16	74	10	52	50	3	0	45	1.19
1506917--1506967	25	2.0	26	81	11	61	58	1	0	39	1.09
1508542--1508675	68	2.0	68	95	0	241	19	7	44	29	1.78
1508711--1508779	32	2.2	32	84	7	88	53	0	1	44	1.09
1508743--1508781	20	1.9	21	89	5	62	58	0	0	41	0.98
1508820--1508911	27	3.5	26	82	10	98	22	1	5	70	1.14
1510187--1510254	25	2.7	25	80	8	66	36	2	0	60	1.12
1511187--1511225	16	2.4	17	82	8	53	41	2	5	51	1.38
1511317--1511353	14	2.6	14	95	0	65	35	8	10	45	1.69

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