genome.fa.s29.2.7.7.80.10.50.1000.10.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   

This is table  10  of  34  ( 4030 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)
1439540--1439564	13	1.9	13	100	0	50	32	16	16	36	1.90
1441621--1441651	10	3.1	10	95	0	53	41	3	29	25	1.71
1441675--1441811	53	2.6	53	94	1	238	27	16	18	37	1.92
1441781--1441851	20	3.5	20	77	11	74	29	12	16	40	1.86
1441891--1441931	21	2.0	21	85	9	57	39	9	12	39	1.76
1447695--1447736	20	2.2	20	87	8	61	28	2	21	47	1.63
1449756--1449789	18	1.9	17	94	5	59	44	0	29	26	1.55
1451586--1451637	3	17.3	3	95	0	95	34	0	34	30	1.58
1456122--1456176	20	2.6	23	80	19	82	32	16	10	40	1.83
1456163--1456188	13	2.0	13	100	0	52	30	15	15	38	1.88
1457441--1457502	31	2.0	32	90	3	99	37	11	19	32	1.87
1458144--1458208	33	2.0	32	88	11	96	33	15	18	32	1.92
1458164--1458188	13	1.9	13	100	0	50	36	16	16	32	1.90
1461261--1461301	2	20.5	2	100	0	82	51	0	0	48	1.00
1465611--1465650	21	1.9	21	85	10	55	65	2	0	32	1.06
1465884--1465918	4	8.8	4	87	0	52	0	28	2	68	1.04
1472459--1472522	33	2.0	33	93	3	112	56	0	29	14	1.39
1475911--1475980	37	1.9	36	94	5	124	32	24	7	35	1.83
1476358--1476430	20	3.7	19	75	17	69	32	10	13	42	1.79
1478944--1478968	13	1.9	13	100	0	50	36	16	16	32	1.90
1478926--1478988	32	1.9	33	90	3	101	38	17	15	28	1.91
1480089--1480133	21	2.1	21	87	0	63	20	26	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1487838--1487901	33	2.0	33	90	3	103	39	14	15	31	1.87
1489767--1489940	79	2.2	80	81	3	208	32	13	27	27	1.93
1489873--1489988	51	2.2	52	87	1	162	32	9	28	29	1.88
1489925--1490291	79	4.6	79	75	10	282	34	11	25	28	1.91
1489768--1490163	210	1.9	210	81	4	476	33	12	25	27	1.92
1490136--1490194	31	1.9	31	96	0	109	27	13	30	28	1.94
1492245--1492269	13	1.9	13	100	0	50	32	16	16	36	1.90
1492351--1492414	33	2.0	33	90	3	103	39	21	10	28	1.87
1507587--1507617	8	4.0	8	95	4	55	87	12	0	0	0.55
1508630--1509243	55	10.9	55	87	5	781	27	26	19	25	1.99
1508764--1508854	28	3.2	28	63	10	69	25	27	20	26	1.99
1508630--1509243	217	2.7	219	87	6	822	27	26	19	25	1.99
1509109--1509524	145	2.8	148	83	6	523	25	28	19	27	1.99
1509435--1509659	61	3.7	61	87	5	307	24	28	20	26	1.99
1509439--1509659	122	1.8	121	92	2	372	24	28	21	25	1.99
1509682--1509785	42	2.5	42	78	10	115	16	19	12	51	1.75
1510711--1510784	20	3.7	19	87	7	103	28	16	13	41	1.86
1512559--1512803	51	4.8	51	82	4	287	32	23	9	34	1.87
1512540--1512803	101	2.6	103	85	5	349	31	24	9	34	1.88
1512790--1512860	27	2.6	28	82	8	92	25	30	19	23	1.98
1512818--1513158	79	4.3	78	88	2	493	26	23	15	34	1.94
1512814--1513199	158	2.4	157	83	5	424	27	23	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514848--1514939	34	2.9	31	76	9	103	14	23	31	30	1.94
1514836--1514934	31	3.0	33	75	8	94	16	23	30	30	1.96
1514965--1515222	126	2.0	126	85	1	347	21	21	27	29	1.98
1515091--1515601	180	2.8	180	82	2	668	20	23	26	29	1.99
1515351--1515425	31	2.4	31	86	0	96	14	26	33	25	1.94
1526845--1526875	13	2.4	13	94	0	53	48	9	9	32	1.69
1526960--1526984	13	1.9	13	100	0	50	32	16	20	32	1.94
1527463--1527574	55	2.1	54	87	1	161	45	14	9	30	1.77
1532220--1532289	33	2.1	33	89	10	108	37	17	15	30	1.91
1532239--1532273	13	2.7	13	95	0	61	37	14	14	34	1.86
1532318--1532370	20	2.7	19	85	5	70	37	15	13	33	1.86
1532359--1532383	13	1.9	13	100	0	50	32	16	16	36	1.90
1532340--1532404	33	2.0	32	88	8	96	38	15	15	30	1.88
1532955--1532996	20	2.0	22	90	9	70	42	16	4	35	1.69
1534713--1534762	21	2.4	21	83	9	59	48	0	20	32	1.50
1534720--1534762	21	2.0	22	86	4	61	51	0	20	27	1.48
1534873--1534909	13	2.8	13	87	0	56	43	10	10	35	1.75
1543568--1543628	13	5.2	12	72	21	58	32	19	13	34	1.90
1543549--1543652	33	3.2	33	90	5	149	30	17	13	38	1.88
1543549--1543614	20	3.7	20	71	26	74	30	16	12	40	1.85
1543615--1543667	20	2.7	20	96	0	97	32	20	15	32	1.93
1543718--1543742	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1544054--1544078	13	1.9	13	100	0	50	32	16	16	36	1.90
1547409--1547570	80	2.0	80	100	0	324	32	20	13	33	1.92
1552521--1552561	21	2.0	21	85	9	57	24	14	4	56	1.58
1554757--1554818	21	2.6	26	80	14	80	37	16	14	32	1.89
1554757--1554818	13	5.2	13	77	18	80	37	16	14	32	1.89
1555220--1555245	13	2.0	13	100	0	52	38	15	15	30	1.88
1557463--1557507	21	2.1	21	84	8	56	53	4	20	22	1.63
1559311--1559341	15	2.1	15	93	0	53	48	16	22	12	1.80
1561421--1561485	13	5.0	13	94	0	112	30	18	15	35	1.92
1561422--1561485	26	2.5	26	100	0	128	31	18	15	34	1.93
1561606--1561652	21	2.3	21	79	20	55	34	19	4	42	1.70
1561608--1561650	20	2.2	19	84	16	52	32	18	4	44	1.71
1564034--1564059	13	2.0	13	100	0	52	38	15	15	30	1.88
1564836--1564890	19	2.9	19	86	8	76	34	16	18	30	1.93
1564875--1564901	13	2.1	13	100	0	54	40	14	14	29	1.86
1566584--1567123	80	6.8	80	76	5	380	27	27	10	33	1.89
1566770--1567142	163	2.3	159	80	3	431	28	28	10	32	1.91
1570796--1570834	20	2.0	19	95	5	69	35	23	10	30	1.88
1570856--1570908	20	2.6	21	82	8	65	37	16	16	28	1.91
1570958--1570983	13	2.0	13	100	0	52	30	15	15	38	1.88
1577015--1577054	19	2.1	19	95	0	71	40	12	15	32	1.84
1577083--1577107	13	1.9	13	100	0	50	32	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577549--1577593	20	2.1	22	84	8	58	17	42	28	11	1.84
1578961--1579005	22	2.0	22	83	8	56	33	4	31	31	1.78
1579503--1579541	20	2.0	19	95	5	69	35	23	10	30	1.88
1579552--1579576	13	1.9	13	100	0	50	32	16	16	36	1.90
1579564--1579616	20	2.6	21	84	3	72	39	15	16	28	1.89
1579657--1579724	33	2.1	33	88	2	102	35	17	13	33	1.89
1580636--1580939	154	2.0	154	79	8	332	40	19	12	27	1.87
1582383--1582408	13	2.0	13	100	0	52	30	15	15	38	1.88
1582363--1582427	33	2.0	33	84	6	87	29	13	15	41	1.86
1584963--1584987	13	1.9	13	100	0	50	32	16	16	36	1.90
1591139--1591197	20	3.0	19	82	7	64	23	13	20	42	1.88
1591677--1591719	21	2.2	19	87	8	59	72	16	0	11	1.13
1592842--1592905	7	9.4	7	76	6	51	17	3	1	78	0.96
1592841--1592900	8	7.5	8	75	14	52	16	3	0	80	0.85
1592843--1592905	13	4.7	13	75	11	56	17	3	1	77	0.97
1599068--1599101	6	5.5	6	96	3	59	0	17	0	82	0.67
1599107--1599151	15	3.2	14	84	9	56	17	2	8	71	1.23
1599889--1599937	13	4.2	13	75	24	63	36	18	12	32	1.88
1599889--1599958	33	2.1	34	89	7	108	34	20	12	32	1.90
1599987--1600040	19	2.8	20	88	2	74	35	20	16	27	1.94
1600007--1600053	19	2.4	19	89	3	67	36	17	19	27	1.93
1600581--1600655	22	3.6	22	72	18	70	25	30	2	41	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1607360--1607388	13	2.2	13	100	0	58	37	13	17	31	1.89
1609260--1609311	20	2.4	21	81	12	61	5	25	48	21	1.72
1611001--1611026	13	2.0	13	100	0	52	30	15	15	38	1.88
1613568--1613606	13	3.0	13	96	0	69	35	15	17	30	1.91
1617522--1617566	21	2.1	21	84	8	56	22	20	4	53	1.63
1619785--1619810	13	2.0	13	100	0	52	30	15	15	38	1.88
1623100--1623174	28	2.7	29	79	10	93	26	14	34	24	1.94
1623185--1623333	51	2.9	50	81	6	172	34	11	24	29	1.90
1623161--1623333	52	3.4	51	79	5	186	31	11	26	30	1.91
1623319--1623416	28	3.5	28	91	1	144	21	21	33	23	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34