genome.fa.s158.2.7.7.80.10.50.1000.11.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: Scaffold158
Parameters: 2 7 7 80 10 50 1000
Length:  1811518

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

This is table  11  of  13  ( 1497 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)
1515037--1515071	2	17.5	2	100	0	70	48	0	0	51	1.00
1515472--1515520	18	2.6	18	74	20	55	65	0	0	34	0.93
1516340--1516413	31	2.3	31	80	11	78	37	1	1	59	1.14
1516707--1516767	29	2.1	29	87	0	86	65	0	3	31	1.09
1516950--1517010	18	3.3	19	82	15	67	32	0	0	67	0.91
1516957--1517017	19	3.3	19	80	13	65	34	0	0	65	0.93
1516957--1517017	18	3.3	18	78	13	61	34	0	0	65	0.93
1517555--1517589	3	11.7	3	100	0	70	34	0	0	65	0.93
1517560--1517609	15	3.1	17	86	11	52	30	4	6	60	1.39
1517962--1518011	22	2.3	21	79	3	55	46	0	2	52	1.12
1517938--1518006	28	2.4	28	80	7	77	44	1	1	52	1.19
1517962--1518014	21	2.5	22	81	3	63	43	0	1	54	1.11
1517959--1518014	16	3.5	15	79	11	58	41	0	1	57	1.09
1518375--1518444	34	2.2	32	82	12	81	42	0	0	57	0.99
1518388--1518468	34	2.3	35	78	8	83	40	0	0	59	0.98
1518554--1518688	61	2.3	59	80	13	156	55	0	0	43	1.05
1518589--1518685	27	3.4	27	69	8	68	55	0	0	44	0.99
1518901--1518934	17	1.9	18	88	5	52	52	0	0	47	1.00
1520494--1520552	16	3.6	16	79	9	66	38	1	1	57	1.19
1521041--1521080	16	2.5	16	87	0	53	60	2	2	35	1.24
1522854--1522965	32	3.5	32	75	7	111	37	11	9	41	1.75
1522875--1522923	16	3.1	16	75	0	53	38	12	6	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1525477--1525689	80	2.7	78	80	8	222	17	33	18	30	1.94
1529337--1529400	27	2.5	26	85	12	87	51	0	0	48	1.00
1529349--1529412	31	2.1	31	87	0	92	50	0	0	50	1.00
1529336--1529415	37	2.3	34	89	6	115	51	0	0	48	1.00
1529439--1529518	25	3.2	25	80	7	83	25	0	2	72	0.97
1529435--1529527	41	2.3	41	80	16	104	29	0	2	68	1.01
1529515--1529588	6	12.7	6	74	9	64	43	0	4	52	1.20
1529521--1529587	22	3.0	22	84	4	89	43	0	4	52	1.21
1529648--1529739	13	6.6	13	73	17	62	52	4	1	42	1.28
1529693--1529737	5	9.4	5	80	9	58	57	2	0	40	1.11
1529647--1529732	21	3.9	23	73	10	81	53	4	1	40	1.29
1530101--1530162	24	2.5	25	75	10	65	43	0	1	54	1.09
1530310--1530352	19	2.1	21	87	8	63	53	0	0	46	1.00
1530310--1530352	21	2.2	20	87	8	61	53	0	0	46	1.00
1536523--1536568	16	2.8	17	75	21	53	45	0	4	50	1.21
1536844--1536940	50	2.0	48	82	11	117	49	1	0	49	1.07
1537032--1537057	2	13.0	2	100	0	52	50	0	0	50	1.00
1537960--1538002	20	2.2	20	88	8	63	65	6	9	18	1.44
1538082--1538154	24	3.0	24	76	13	62	39	2	0	57	1.13
1538100--1538144	23	2.0	23	86	8	65	42	2	0	55	1.12
1542145--1542175	9	3.4	9	90	0	53	0	12	0	87	0.55
1543392--1543753	79	4.6	74	77	9	301	30	24	11	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1543455--1543753	157	1.9	158	81	6	365	30	24	11	33	1.90
1543689--1543857	51	3.3	50	81	6	196	28	25	10	34	1.89
1551956--1551985	15	2.0	15	100	0	60	86	0	0	13	0.57
1559222--1559268	16	3.1	16	82	17	64	72	10	12	4	1.25
1560603--1561150	27	19.9	27	88	4	765	23	33	14	28	1.94
1560603--1561150	55	10.0	54	90	3	787	23	33	14	28	1.94
1561145--1562113	32	30.8	32	85	3	1080	31	27	19	21	1.97
1561766--1562471	56	12.0	56	77	8	500	29	30	17	21	1.97
1561157--1562461	32	42.6	32	82	6	1056	30	28	18	21	1.97
1567932--1567974	16	2.7	17	79	13	56	44	0	0	55	0.99
1567947--1567992	20	2.2	21	77	14	51	45	0	0	54	0.99
1568265--1568327	27	2.3	27	83	0	72	34	3	3	58	1.30
1568693--1568746	17	3.2	17	70	19	51	44	1	0	53	1.11
1568690--1568756	16	4.1	17	77	11	68	47	1	0	50	1.10
1568776--1568818	12	3.8	12	78	12	54	46	0	0	53	1.00
1569265--1569441	5	37.4	5	65	25	66	36	0	1	61	1.10
1569277--1569474	10	20.1	10	65	22	91	34	0	1	63	1.05
1569249--1569470	122	1.8	123	94	1	392	35	0	1	62	1.09
1569264--1569479	28	8.2	26	69	18	83	34	0	1	62	1.09
1569397--1569464	29	2.3	30	85	12	97	33	0	0	66	0.92
1570598--1570646	21	2.3	22	85	3	64	34	2	8	55	1.41
1570765--1570797	6	5.7	6	92	7	59	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570950--1570991	18	2.4	16	88	11	57	47	0	4	47	1.23
1572561--1572617	20	2.7	22	72	10	55	57	0	3	38	1.16
1573172--1573215	14	3.2	14	78	18	56	59	0	0	40	0.98
1574016--1574093	15	5.1	15	75	20	54	43	0	0	56	0.99
1574047--1574091	7	6.1	7	80	10	54	37	0	0	62	0.96
1574030--1574091	30	2.1	30	82	11	74	41	0	0	58	0.98
1574030--1574091	7	8.2	8	76	13	53	41	0	0	58	0.98
1574048--1574091	15	2.9	15	96	0	79	36	0	0	63	0.95
1574752--1574815	33	1.9	33	87	0	92	50	0	0	50	1.00
1575992--1576055	30	2.1	30	85	0	83	32	17	7	42	1.78
1576297--1576325	15	2.0	15	93	6	51	48	0	10	41	1.37
1577668--1577699	4	7.8	4	93	6	55	75	0	0	25	0.81
1583804--1583852	19	2.5	19	80	9	55	40	4	2	53	1.32
1584587--1584633	22	2.1	23	88	4	69	48	0	0	51	1.00
1585972--1586019	19	2.3	21	86	13	73	70	0	4	25	1.04
1585976--1586019	21	2.2	20	92	8	72	72	0	4	22	1.02
1586697--1586751	26	2.1	26	86	6	76	45	5	0	49	1.25
1587765--1587807	20	2.2	20	83	8	52	55	4	9	30	1.52
1589692--1589837	51	2.8	51	85	8	188	29	13	15	41	1.85
1601776--1601859	8	9.9	8	72	20	64	82	13	3	1	0.86
1601771--1601861	18	5.0	19	71	18	68	82	13	3	1	0.85
1603099--1603718	28	21.7	28	83	6	638	30	30	16	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603104--1603718	85	7.2	83	82	6	626	31	30	16	21	1.96
1604501--1604555	20	2.8	20	88	0	83	32	12	14	40	1.84
1604450--1604672	71	3.1	70	88	5	306	30	14	14	40	1.87
1604572--1604628	20	2.8	20	84	5	62	33	12	12	42	1.80
1606303--1606538	52	4.6	51	79	4	208	35	10	22	31	1.88
1608970--1609022	22	2.6	21	88	8	74	32	15	13	39	1.85
1608970--1609032	22	3.0	22	81	6	69	34	12	12	39	1.82
1614565--1615034	55	8.3	55	87	5	588	24	22	26	26	2.00
1614899--1614984	26	3.2	26	64	15	66	22	22	30	25	1.99
1615052--1615292	55	4.4	55	92	2	403	20	22	29	27	1.98
1614903--1615188	149	1.9	150	92	3	479	22	21	30	25	1.99
1615158--1615241	26	3.1	26	63	15	62	22	22	29	25	1.99
1614848--1615237	204	1.9	204	94	1	683	21	22	29	26	1.99
1614794--1615366	259	2.2	259	93	0	988	22	21	30	25	1.99
1616369--1616440	1	72.0	1	77	0	72	0	4	6	88	0.61
1616366--1616425	19	3.1	19	85	4	84	0	6	5	88	0.63
1616369--1616440	26	2.7	27	87	8	103	0	4	6	88	0.61
1629079--1629225	79	1.9	79	85	2	206	34	14	25	25	1.94
1629118--1629264	80	1.8	79	83	1	195	29	14	27	27	1.96
1629197--1629433	51	4.6	50	80	6	260	34	11	24	29	1.90
1629197--1629433	102	2.3	104	83	2	309	34	11	24	29	1.90
1634489--1634574	17	5.8	16	66	25	55	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1634489--1634599	25	4.5	24	71	17	86	42	0	0	57	0.98
1634511--1634603	39	2.3	42	83	10	113	41	0	0	58	0.98
1639842--1639867	12	2.2	12	100	0	52	46	11	0	42	1.40
1640664--1640710	23	2.0	23	87	4	67	29	0	0	70	0.88
1641248--1641291	20	2.2	20	84	8	54	40	0	0	59	0.98
1641623--1641656	16	2.1	16	88	0	50	50	2	0	47	1.16
1642021--1642087	3	22.7	3	87	3	100	62	0	0	37	0.95
1642330--1642359	3	10.0	3	100	0	60	0	33	0	66	0.92
1645720--1645762	22	2.0	22	90	9	70	67	0	0	32	0.91
1645915--1646056	5	25.2	6	66	22	51	34	1	0	63	1.08

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