genome.fa.s140.2.7.7.80.10.50.1000.10.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  10  of  20  ( 2326 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)
1499837--1499874	20	1.9	20	89	10	60	50	2	0	47	1.15
1500023--1500049	2	13.5	2	100	0	54	51	0	0	48	1.00
1501354--1501443	2	48.0	2	69	18	52	52	1	1	45	1.15
1501379--1501429	18	2.7	19	85	14	63	58	0	0	41	0.98
1501378--1501430	21	2.5	21	78	6	63	58	0	0	41	0.98
1507003--1507027	2	12.5	2	100	0	50	48	0	0	52	1.00
1514524--1514566	16	2.6	17	78	10	54	58	0	0	41	0.98
1514600--1514636	17	2.1	18	90	5	58	54	0	0	45	1.00
1514623--1514660	15	2.5	15	83	8	51	50	0	0	50	1.00
1514866--1514908	24	1.9	23	86	13	63	53	0	0	46	1.00
1515232--1515319	26	3.2	27	76	15	83	53	0	0	46	1.00
1516507--1516555	25	2.0	24	84	4	62	26	6	6	61	1.43
1517587--1517639	18	2.9	18	84	15	74	37	0	1	60	1.08
1517589--1517639	17	2.8	18	82	14	61	39	0	1	58	1.09
1518578--1518624	22	2.1	23	84	7	62	40	0	2	57	1.11
1518951--1519001	25	2.0	26	88	7	77	49	0	9	41	1.36
1519664--1519714	24	2.1	24	85	10	68	41	7	1	49	1.43
1521433--1521527	47	2.0	47	91	0	154	32	3	13	50	1.57
1521913--1521995	43	2.0	41	85	4	112	34	12	16	36	1.86
1522055--1522178	66	1.9	66	96	0	230	30	9	25	34	1.88
1531963--1531995	16	2.0	17	88	5	50	54	0	0	45	0.99
1531817--1532616	444	1.8	442	85	5	1134	45	4	8	41	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532524--1532615	29	3.2	28	71	18	73	47	0	7	44	1.31
1533286--1533327	2	21.0	2	90	0	66	50	4	0	45	1.23
1534132--1534163	9	3.8	9	88	12	50	43	0	0	56	0.99
1534193--1534238	19	2.4	19	85	7	58	54	0	0	45	0.99
1539698--1539731	9	3.8	9	88	0	50	26	29	8	35	1.87
1543441--1543467	2	13.5	2	100	0	54	51	0	0	48	1.00
1544167--1544208	21	2.0	21	86	13	61	61	0	0	38	0.96
1550247--1550298	20	2.6	20	84	0	68	34	13	11	40	1.81
1551212--1551266	22	2.5	22	100	0	110	18	10	9	61	1.54
1551212--1551273	22	2.9	21	90	4	63	20	11	9	58	1.61
1563056--1563152	1	97.0	1	79	0	86	87	5	7	0	0.66
1563056--1563152	37	2.7	36	85	9	144	87	5	7	0	0.66
1563057--1563149	34	2.8	33	87	11	143	87	5	7	0	0.68
1563057--1563151	35	2.8	35	90	7	151	87	5	7	0	0.67
1568880--1569618	27	27.0	27	90	1	1109	23	33	14	29	1.94
1568880--1569618	82	9.0	81	90	2	1111	23	33	14	29	1.94
1569601--1570111	32	16.0	32	95	0	862	31	35	18	15	1.92
1570668--1570719	20	2.6	20	84	0	68	34	13	11	40	1.81
1571633--1571687	22	2.5	22	100	0	110	18	10	9	61	1.54
1571633--1571694	22	2.9	21	90	4	63	20	11	9	58	1.61
1579560--1579593	16	2.2	16	89	5	52	70	5	0	23	1.09
1580771--1580847	16	4.8	16	77	7	84	36	5	1	57	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1580951--1580980	15	1.9	16	93	6	53	36	6	6	50	1.55
1581352--1581496	74	1.9	75	83	6	188	43	1	8	46	1.43
1581609--1581661	21	2.6	20	78	3	61	33	0	7	58	1.26
1581609--1581673	21	3.1	21	69	8	53	30	0	7	61	1.24
1581632--1581693	33	1.9	32	90	6	99	32	0	4	62	1.16
1581676--1581729	20	2.6	21	85	2	74	44	5	3	46	1.44
1581676--1581726	21	2.5	21	87	3	68	47	5	3	43	1.46
1581670--1581812	62	2.3	60	76	11	153	44	4	4	46	1.44
1582440--1582483	13	3.5	12	81	6	52	75	0	0	25	0.81
1582442--1582485	22	1.9	24	86	9	65	75	0	0	25	0.81
1582928--1582977	13	3.8	13	75	19	50	46	0	2	52	1.12
1583484--1583519	19	1.9	19	88	5	56	27	0	2	69	1.02
1588762--1588841	34	2.4	34	78	0	97	37	35	5	22	1.76
1591362--1591876	255	2.0	255	100	0	1030	32	20	15	31	1.94
1593855--1594340	97	5.0	96	92	1	774	47	15	9	28	1.76
1595116--1595180	22	2.8	24	84	13	84	49	0	0	50	1.00
1595146--1595212	34	1.9	34	85	14	93	52	0	0	47	1.00
1595089--1595214	57	2.2	59	79	13	138	47	0	0	52	1.00
1595168--1595235	29	2.3	29	80	10	75	52	0	0	47	1.00
1595795--1595824	2	15.0	2	92	0	51	46	0	3	50	1.18
1595795--1595833	10	3.9	10	93	0	51	43	0	7	48	1.31
1596666--1596748	41	2.0	41	95	0	148	40	4	26	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1597559--1597606	22	2.2	21	82	10	53	37	8	8	45	1.64
1598272--1598327	25	2.3	23	81	9	67	39	3	0	57	1.16
1599235--1599266	14	2.3	15	89	10	50	62	0	0	37	0.95
1599808--1599880	18	4.3	18	67	13	55	56	0	0	43	0.99
1599811--1599861	21	2.5	21	84	9	61	56	0	0	43	0.99
1600303--1600337	13	2.7	13	90	0	52	42	0	0	57	0.99
1600404--1600460	21	2.5	23	83	8	64	45	0	1	52	1.11
1603929--1603964	18	2.0	18	94	0	63	47	0	0	52	1.00
1604610--1604708	21	4.6	22	74	14	73	64	1	2	32	1.11
1604616--1604703	11	8.1	11	74	15	67	65	0	2	31	1.05
1604616--1604703	43	2.0	44	82	6	108	65	0	2	31	1.05
1610655--1610716	27	2.3	27	75	10	72	35	6	4	53	1.48
1611480--1611543	31	2.1	31	82	5	76	46	0	0	53	1.00
1611924--1611997	32	2.2	32	83	4	94	43	1	0	55	1.08
1611931--1612048	17	7.1	17	69	18	63	38	2	0	58	1.12
1614004--1614044	16	2.6	15	84	7	55	39	0	4	56	1.21
1614000--1614046	16	2.9	17	75	9	53	40	0	4	55	1.19
1614211--1614263	6	8.6	7	95	4	57	49	3	0	47	1.19
1614217--1614270	2	26.5	2	92	3	90	51	1	0	46	1.11
1616042--1616068	7	3.9	7	100	0	54	14	0	0	85	0.61
1617851--1617888	13	2.8	13	81	18	51	52	0	0	47	1.00
1619880--1619905	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1620017--1620059	15	2.9	15	78	0	50	44	2	2	51	1.27
1621739--1621785	22	2.2	22	85	11	62	51	0	0	48	1.00
1621751--1621797	20	2.3	22	78	10	55	51	0	0	48	1.00
1624128--1624222	30	3.2	29	77	14	88	40	4	4	51	1.41
1624105--1624233	30	4.4	29	73	11	86	41	3	3	51	1.36
1624444--1624502	28	2.1	28	84	9	75	44	0	0	55	0.99
1624726--1624783	16	3.6	15	75	22	55	60	0	0	39	0.97
1624959--1624990	2	16.0	2	100	0	64	50	0	0	50	1.00
1633029--1633170	56	2.5	56	79	3	151	34	16	20	28	1.94
1636435--1636478	23	1.9	23	81	9	54	61	0	0	38	0.96
1640127--1640190	10	6.3	10	77	16	60	71	0	1	26	0.94
1640127--1640192	19	3.2	20	72	20	55	71	0	1	27	0.95
1640134--1640191	10	5.7	10	78	11	64	72	0	1	25	0.94
1640221--1640485	129	2.1	129	91	1	433	49	3	3	43	1.37
1650635--1650679	19	2.4	19	88	0	63	48	2	2	46	1.26
1651231--1651294	29	2.2	29	86	8	85	48	6	0	45	1.27
1651792--1651888	23	4.3	23	74	11	92	64	7	6	21	1.40
1651792--1651971	23	7.7	23	69	15	73	62	7	6	23	1.44
1652013--1652071	24	2.5	24	88	0	82	18	6	15	59	1.58
1652036--1652138	23	4.4	23	77	10	93	19	6	9	64	1.46
1652036--1652138	47	2.2	46	81	6	109	19	6	9	64	1.46
1652250--1652337	36	2.3	39	81	11	103	37	1	1	60	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652296--1652336	19	2.1	20	86	4	57	34	2	0	63	1.08
1654133--1654177	14	2.9	16	78	18	51	62	0	2	35	1.08
1654394--1654446	20	2.5	22	75	9	56	64	0	0	35	0.94
1657558--1657602	2	22.5	2	100	0	90	51	0	48	0	1.00
1659636--1659660	3	8.3	3	100	0	50	68	0	0	32	0.90
1659978--1660015	15	2.5	15	91	0	58	47	0	0	52	1.00
1660044--1660111	18	3.6	18	74	14	66	55	0	0	44	0.99
1660473--1660517	2	23.5	2	82	8	58	46	2	0	51	1.13
1661129--1661201	31	2.4	29	80	17	85	64	1	0	34	1.02
1661176--1661218	20	2.2	20	83	8	52	65	0	0	34	0.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20