genome.fa.s24.2.7.7.80.10.50.1000.9.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: Scaffold24
Parameters: 2 7 7 80 10 50 1000
Length:  3006277

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  9  of  19  ( 2215 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)
1553913--1553956	22	2.0	21	83	12	54	68	2	0	29	1.02
1554725--1554790	22	3.0	22	78	8	71	45	0	0	54	0.99
1554861--1554899	16	2.6	14	85	14	60	46	5	0	48	1.24
1555593--1555633	4	10.8	4	84	10	59	48	0	2	48	1.14
1555597--1555632	18	2.0	18	94	0	63	50	0	2	47	1.15
1560674--1560757	2	42.0	2	91	0	105	50	4	2	42	1.36
1562335--1562368	2	17.0	2	100	0	68	50	0	0	50	1.00
1562651--1562718	35	1.9	35	81	0	82	55	4	4	35	1.40
1567100--1567543	215	2.0	219	91	4	725	39	21	12	26	1.89
1569141--1569181	21	2.0	21	85	9	57	65	0	0	34	0.93
1569317--1569354	19	2.0	19	90	10	60	31	0	0	68	0.90
1569323--1569368	19	2.3	20	82	14	60	36	0	0	63	0.95
1569312--1569393	28	3.0	27	71	13	78	40	0	0	59	0.97
1570523--1570586	31	2.1	31	96	0	119	60	0	0	39	0.97
1571249--1571332	39	2.2	39	100	0	168	26	9	9	54	1.63
1573203--1573227	12	2.1	12	100	0	50	44	0	8	48	1.32
1577266--1577339	38	1.9	39	83	2	96	66	0	2	31	1.06
1577265--1577330	27	2.4	28	84	7	89	66	0	3	30	1.06
1577938--1577981	2	22.0	2	100	0	88	50	0	0	50	1.00
1578091--1578124	2	17.0	2	100	0	68	50	0	0	50	1.00
1577948--1578259	143	2.2	143	98	0	597	40	6	8	45	1.60
1578378--1578402	13	1.9	13	100	0	50	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578694--1578749	24	2.2	25	81	12	60	42	1	1	53	1.21
1578877--1578956	5	16.2	5	73	19	53	60	0	0	40	0.97
1578868--1578945	15	4.9	16	71	23	58	57	0	1	41	1.07
1578851--1578924	31	2.5	29	85	14	91	54	0	1	44	1.08
1578837--1578942	24	4.2	25	72	23	87	56	0	0	42	1.05
1578837--1578953	26	4.5	27	72	14	102	57	0	0	41	1.05
1578844--1578960	54	2.2	52	80	11	130	58	0	0	41	1.04
1578877--1578970	32	2.7	34	77	19	97	61	0	0	38	0.96
1579182--1579221	5	8.4	5	83	10	57	65	0	0	35	0.93
1579182--1579227	19	2.4	19	92	0	74	63	0	0	36	0.95
1579190--1579219	14	2.2	13	94	5	51	66	0	0	33	0.92
1579182--1579233	19	2.8	19	88	2	70	61	0	1	36	1.07
1580068--1580121	28	1.9	28	81	7	65	38	1	0	59	1.08
1581805--1581838	9	3.8	9	84	0	50	50	0	0	50	1.00
1581888--1581982	44	2.1	44	98	1	181	51	17	2	28	1.57
1582218--1582266	8	6.2	8	84	11	57	40	0	0	59	0.98
1582218--1582266	15	3.1	15	80	11	62	40	0	0	59	0.98
1582671--1582717	20	2.3	21	78	7	53	51	0	0	48	1.00
1584690--1584725	15	2.4	15	90	0	54	55	2	0	41	1.14
1586306--1586383	22	3.5	22	76	11	79	42	1	1	55	1.16
1586356--1586437	36	2.3	35	81	14	87	52	0	1	46	1.08
1593964--1594005	18	2.3	18	95	0	75	28	23	0	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596781--1596830	23	2.1	25	88	7	77	46	0	4	50	1.20
1596783--1596841	23	2.6	23	71	15	59	50	0	3	45	1.18
1597847--1597888	21	2.0	21	90	9	68	59	0	0	40	0.97
1597826--1597891	35	1.9	34	84	3	87	54	1	0	43	1.09
1598873--1598908	2	18.0	2	100	0	72	50	0	0	50	1.00
1600353--1600414	33	1.9	33	83	3	81	61	3	1	33	1.22
1600351--1600415	16	4.0	16	78	11	69	60	3	1	35	1.22
1600511--1600537	7	3.9	7	100	0	54	85	0	0	14	0.61
1601104--1601134	14	2.1	15	94	5	55	48	0	0	51	1.00
1601419--1601457	12	3.2	12	92	3	60	89	2	5	2	0.63
1605976--1606029	14	3.8	14	76	18	58	50	0	1	48	1.11
1606368--1606401	14	2.4	14	95	0	59	29	0	20	50	1.49
1606369--1606399	12	2.6	12	94	0	53	25	0	22	51	1.48
1606883--1606923	14	2.8	15	88	3	66	43	0	2	53	1.13
1607045--1607097	27	2.0	27	88	0	79	41	1	1	54	1.22
1607222--1607259	19	2.0	19	85	10	51	55	0	0	44	0.99
1607313--1607380	8	8.4	8	72	8	57	32	0	0	67	0.91
1607319--1607380	16	3.9	16	85	6	72	33	0	0	66	0.92
1607313--1607366	25	2.2	25	86	0	72	31	0	0	68	0.90
1608521--1608579	22	2.8	21	78	16	68	40	0	0	59	0.97
1608619--1608654	3	12.0	3	93	0	63	30	0	2	66	1.06
1609118--1609186	32	2.1	34	84	10	90	53	0	1	44	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609733--1609774	20	2.0	20	82	13	50	57	0	2	40	1.12
1610213--1610247	18	1.9	18	88	11	54	51	0	2	45	1.16
1610321--1610374	17	3.1	17	72	15	56	33	0	1	64	1.04
1610409--1610631	122	1.8	121	86	5	324	45	1	21	31	1.62
1618456--1618493	2	19.0	2	88	0	58	47	2	0	50	1.15
1618754--1618782	13	2.1	14	93	6	51	48	0	0	51	1.00
1618746--1618798	16	3.5	15	77	15	56	47	3	0	49	1.19
1620237--1620262	13	2.0	13	100	0	52	30	0	7	61	1.24
1620281--1620314	17	2.0	17	88	0	50	41	0	2	55	1.15
1621623--1621648	13	2.0	13	100	0	52	61	0	0	38	0.96
1622371--1622413	22	2.0	22	90	4	70	69	0	0	30	0.88
1622742--1622782	3	13.7	3	100	0	82	65	0	0	34	0.93
1622968--1623016	19	2.7	19	84	6	57	44	0	0	55	0.99
1622941--1623043	29	3.5	28	71	15	73	40	0	0	59	0.98
1624204--1624257	24	2.2	25	90	9	85	29	3	0	66	1.09
1625667--1625708	19	2.2	19	87	8	59	42	0	2	54	1.13
1625682--1625784	15	6.7	15	67	20	54	44	0	1	53	1.11
1625999--1626084	32	2.8	31	74	10	77	34	5	3	55	1.41
1626055--1626128	39	1.9	39	86	2	105	29	8	1	60	1.33
1626415--1626478	23	2.8	23	81	6	67	53	0	1	45	1.10
1626481--1626542	26	2.4	25	81	8	61	50	0	0	50	1.00
1626491--1626529	20	1.9	21	89	5	62	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)
1626487--1626542	25	2.2	26	84	9	71	51	0	0	48	1.00
1626517--1626561	21	2.0	21	83	12	54	44	2	2	51	1.26
1626796--1626831	7	5.0	7	90	6	54	58	0	0	41	0.98
1626807--1626862	27	2.0	27	83	10	69	64	1	1	32	1.14
1626901--1626947	12	4.0	12	78	13	53	34	0	0	65	0.93
1626905--1626947	23	2.0	21	90	9	68	34	0	0	65	0.93
1630655--1630684	2	15.0	2	100	0	60	50	0	0	50	1.00
1631041--1631081	21	2.0	21	85	9	57	34	2	0	63	1.08
1631201--1631231	2	15.5	2	100	0	62	51	0	0	48	1.00
1632425--1632451	3	9.0	3	100	0	54	66	0	0	33	0.92
1633038--1633079	18	2.3	18	87	0	57	57	0	0	42	0.99
1633698--1633757	29	2.1	28	84	9	77	60	0	0	40	0.97
1635802--1635835	12	2.8	12	87	12	52	82	0	11	5	0.83
1636528--1636565	2	19.0	2	94	0	67	0	52	0	47	1.00
1636639--1636689	6	8.3	6	86	4	57	60	1	0	37	1.08
1639265--1639339	27	2.9	25	75	14	80	44	0	0	56	0.99
1639272--1639329	25	2.4	24	74	25	59	43	0	0	56	0.99
1639285--1639360	14	5.1	14	69	19	55	42	1	0	56	1.07
1639267--1639360	16	6.4	15	67	22	65	42	1	0	56	1.06
1639305--1639356	19	2.7	19	74	8	52	42	1	0	55	1.10
1640536--1640586	22	2.3	21	86	6	66	37	5	5	50	1.51
1641444--1641478	2	18.0	2	94	5	63	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)
1642379--1642426	19	2.6	18	78	15	53	39	0	2	58	1.10
1642922--1642966	18	2.5	18	81	0	54	42	0	0	57	0.98
1642935--1642968	17	2.0	17	88	11	52	32	0	0	67	0.91
1643303--1643344	21	2.0	21	86	13	61	59	0	0	40	0.97
1644074--1644103	15	2.0	15	100	0	60	53	20	0	26	1.46
1645667--1645693	14	1.9	14	100	0	54	66	11	0	22	1.22
1646281--1646362	38	2.2	38	84	4	103	46	4	0	48	1.23
1647347--1647381	11	3.2	11	91	0	52	40	0	5	54	1.24
1650056--1650097	21	2.0	21	86	13	61	40	0	0	59	0.97
1650366--1650461	20	4.8	20	70	23	62	43	1	1	54	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19