genome.fa.s59.2.7.7.80.10.50.1000.9.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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   

This is table  9  of  25  ( 2913 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)
1436801--1436840	19	2.1	19	90	9	64	47	5	0	47	1.24
1436946--1436980	16	2.2	16	94	0	61	54	14	0	31	1.40
1436945--1436982	20	1.9	20	94	0	67	52	15	0	31	1.43
1438168--1438196	2	14.5	2	100	0	58	48	0	0	51	1.00
1441200--1441233	18	1.9	17	88	5	50	61	0	0	38	0.96
1443269--1443302	15	2.2	16	89	5	52	47	0	0	52	1.00
1447695--1447744	2	25.0	2	100	0	100	50	0	50	0	1.00
1452984--1453087	47	2.1	47	84	5	127	54	0	0	44	1.06
1453008--1453085	21	3.5	21	69	16	57	51	0	1	47	1.09
1453171--1453246	25	3.0	26	73	19	79	47	1	0	51	1.09
1453171--1453252	16	5.7	15	68	21	59	47	1	0	51	1.08
1453619--1453653	17	2.1	17	89	10	54	37	0	0	62	0.95
1457758--1457791	2	17.0	2	100	0	68	50	0	0	50	1.00
1459834--1459951	59	2.0	59	94	0	209	39	16	9	34	1.80
1466065--1466168	47	2.1	47	84	5	127	54	0	0	44	1.06
1466089--1466166	21	3.5	21	69	16	57	51	0	1	47	1.09
1466252--1466327	25	3.0	26	73	19	79	47	1	0	51	1.09
1466252--1466333	16	5.7	15	68	21	59	47	1	0	51	1.08
1466700--1466734	17	2.1	17	89	10	54	37	0	0	62	0.95
1472902--1473019	59	2.0	59	96	0	218	38	16	9	34	1.81
1476488--1476529	19	2.3	18	87	4	57	47	2	0	50	1.14
1478118--1478150	10	3.0	11	86	13	50	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)
1478277--1478321	16	2.8	16	82	0	54	15	6	28	48	1.70
1478233--1478315	32	2.6	33	76	5	89	15	9	27	46	1.77
1479339--1479426	16	5.5	16	70	17	67	22	17	20	39	1.92
1479342--1479444	32	3.2	31	78	10	118	22	18	18	40	1.91
1479358--1479472	48	2.4	48	80	8	128	22	17	20	40	1.92
1479367--1479459	16	5.8	16	74	17	79	22	18	20	38	1.93
1479342--1479459	32	3.7	33	72	21	101	22	17	19	40	1.91
1480715--1480781	22	3.0	22	82	10	66	52	1	0	46	1.09
1480763--1480811	16	2.9	16	79	14	55	44	0	0	55	0.99
1481169--1481193	2	12.5	2	100	0	50	48	0	0	52	1.00
1481485--1481525	15	2.6	16	81	14	50	39	0	0	60	0.96
1482030--1482075	25	2.0	22	95	0	56	36	13	0	50	1.41
1482665--1482759	5	16.8	6	70	16	53	33	2	1	63	1.13
1482660--1482723	31	2.1	31	85	5	85	37	1	0	60	1.06
1482663--1482760	11	9.4	11	70	25	52	34	2	1	62	1.14
1482665--1482753	14	6.6	14	73	20	59	33	1	1	64	1.09
1482660--1482748	25	3.5	24	74	19	76	34	1	1	62	1.10
1483529--1483561	2	16.5	2	93	0	57	48	0	0	51	1.00
1483874--1483915	14	2.8	15	85	10	59	54	0	0	45	0.99
1483906--1483938	16	2.1	16	88	11	50	39	0	0	60	0.97
1484200--1484227	2	14.0	2	100	0	56	50	0	0	50	1.00
1484928--1484956	2	14.5	2	100	0	58	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)
1485253--1485338	36	2.4	36	86	2	109	54	1	1	43	1.15
1485962--1486001	21	1.9	21	85	10	55	45	0	2	52	1.14
1485993--1486054	32	1.9	33	83	9	83	40	0	4	54	1.22
1486061--1486115	26	2.0	28	83	13	71	36	0	0	63	0.95
1486862--1486940	28	2.9	25	74	18	70	56	0	0	43	0.99
1486828--1486939	45	2.5	42	74	20	104	54	0	0	45	0.99
1486875--1486940	26	2.4	27	87	12	91	59	0	0	40	0.98
1487145--1487175	7	4.4	7	91	0	53	58	0	41	0	0.98
1488296--1488350	6	9.3	6	77	18	53	32	0	0	67	0.91
1488296--1488355	20	2.9	21	78	9	70	35	0	0	65	0.93
1488300--1488366	16	4.4	16	80	12	70	37	0	0	62	0.95
1488322--1488370	10	4.8	10	80	5	53	40	0	0	59	0.98
1488325--1488371	16	3.0	16	76	14	53	44	0	0	55	0.99
1488467--1488515	22	2.2	22	89	7	73	63	0	2	34	1.06
1488581--1488634	21	2.4	21	81	9	63	59	5	0	35	1.21
1488593--1488662	11	6.7	11	67	23	53	60	4	0	35	1.17
1490264--1490317	27	2.0	28	85	10	76	42	0	0	57	0.98
1490886--1490947	29	2.2	28	82	2	70	58	0	1	40	1.08
1490984--1491035	22	2.4	21	81	9	68	55	0	0	44	0.99
1491447--1491498	20	2.6	20	80	17	63	51	0	0	48	1.00
1498847--1498997	70	2.2	70	93	2	259	46	0	9	44	1.35
1501373--1501417	22	2.0	22	87	8	65	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505899--1505929	2	15.5	2	93	0	53	48	0	0	51	1.00
1506604--1506643	19	2.0	21	90	9	66	42	0	0	57	0.98
1506846--1506893	22	2.0	24	84	11	64	50	0	0	50	1.00
1509552--1509584	2	17.0	2	93	6	59	48	0	0	51	1.00
1529468--1529498	2	15.5	2	100	0	62	0	51	0	48	1.00
1530654--1530680	14	1.9	14	100	0	54	0	7	40	51	1.30
1531476--1531504	3	9.7	3	100	0	58	34	0	31	34	1.58
1533365--1533404	2	20.0	2	100	0	80	50	50	0	0	1.00
1534365--1534394	13	2.3	13	94	0	51	0	10	0	90	0.47
1534365--1534394	15	2.1	14	93	6	51	0	10	0	90	0.47
1535742--1535795	24	2.3	22	73	17	54	37	1	0	61	1.07
1536055--1536129	17	4.4	16	76	16	55	57	0	0	42	0.98
1536042--1536145	37	2.8	36	80	15	115	56	0	0	42	1.05
1536073--1536132	18	3.3	18	76	15	70	56	0	0	43	0.99
1537595--1537643	25	2.0	25	88	8	73	51	0	0	48	1.00
1537629--1537662	15	2.2	16	89	5	52	52	0	0	47	1.00
1537595--1537659	21	3.0	21	71	8	60	52	0	0	47	1.00
1537951--1537976	7	3.7	7	100	0	52	73	0	0	26	0.84
1538257--1538313	20	2.8	20	84	5	71	33	0	0	66	0.92
1539254--1539301	18	2.6	19	80	9	55	47	0	0	52	1.00
1540685--1540721	14	2.7	15	84	16	53	45	0	0	54	1.00
1541223--1541266	2	22.0	2	95	0	70	0	45	4	50	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1541576--1541606	2	15.5	2	93	0	53	48	0	3	48	1.17
1544929--1544966	20	1.9	20	89	10	60	55	0	0	44	0.99
1545004--1545055	19	2.8	19	80	8	63	32	0	0	67	0.91
1546533--1546558	2	13.0	2	100	0	52	50	0	0	50	1.00
1547236--1547282	23	2.1	23	84	4	60	61	0	2	36	1.08
1548287--1548311	2	12.5	2	100	0	50	48	0	0	52	1.00
1548731--1548791	32	1.9	31	87	9	88	31	0	1	67	1.01
1550830--1550918	26	3.5	26	71	14	80	42	0	0	57	0.98
1550857--1550922	16	4.0	16	73	13	53	42	0	0	57	0.98
1550842--1550885	20	2.3	20	80	7	56	43	0	0	56	0.99
1550854--1550931	33	2.3	34	82	12	90	42	0	0	57	0.98
1550843--1550989	51	2.9	51	78	16	137	40	1	0	57	1.12
1550892--1550989	51	1.9	52	85	10	139	38	2	1	58	1.17
1551330--1551370	22	1.9	21	85	5	55	48	0	0	51	1.00
1551373--1551439	29	2.3	29	82	7	73	50	4	4	40	1.43
1551774--1551820	20	2.3	21	92	3	78	42	0	0	57	0.98
1552128--1552161	7	4.5	8	85	14	54	76	0	0	23	0.79
1552128--1552161	15	2.3	15	100	0	68	76	0	0	23	0.79
1556162--1556290	65	2.0	66	90	1	206	45	3	6	44	1.44
1557589--1557656	26	2.8	24	72	22	61	54	1	0	44	1.09
1558883--1558911	12	2.4	12	100	0	58	48	0	0	51	1.00
1558880--1558928	19	2.5	20	80	9	57	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558843--1558937	48	1.9	49	81	12	115	47	0	0	52	1.00
1560584--1560660	5	15.6	5	72	17	63	59	0	0	40	0.97
1561558--1561608	23	2.2	23	80	16	61	50	3	1	43	1.31
1562346--1562384	15	2.5	16	83	4	53	53	20	0	25	1.45
1562909--1562944	5	7.2	5	87	0	54	22	2	16	58	1.51
1565135--1565164	2	15.0	2	100	0	60	50	0	0	50	1.00
1565473--1565522	26	2.0	25	88	4	73	0	0	18	82	0.68
1565476--1565529	17	3.0	17	78	19	56	0	1	16	81	0.78
1569292--1569340	21	2.4	21	86	3	64	55	24	4	16	1.59
1574092--1574149	24	2.5	23	80	5	55	46	8	1	43	1.44

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