genome.fa.s168.2.7.7.80.10.50.1000.14.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

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

This is table  14  of  16  ( 1854 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)
1573892--1573921	5	6.0	5	100	0	60	20	0	0	80	0.72
1576530--1576561	14	2.3	14	100	0	64	59	0	0	40	0.97
1576535--1576593	19	3.0	20	75	12	59	59	0	1	38	1.08
1578392--1578427	15	2.3	15	90	4	54	50	5	0	44	1.25
1581034--1581149	30	3.6	31	72	15	87	43	0	0	56	0.99
1581041--1581095	24	2.3	23	81	9	65	40	0	0	60	0.97
1581115--1581155	22	1.9	21	85	14	57	41	0	0	58	0.98
1581419--1581483	16	4.0	16	70	9	60	58	1	1	38	1.17
1583244--1583369	62	2.0	62	98	0	243	29	11	21	38	1.88
1583669--1583822	80	1.9	80	94	0	272	35	11	20	33	1.88
1586823--1586862	2	20.0	2	100	0	80	50	0	0	50	1.00
1590771--1590818	2	24.0	2	100	0	96	50	0	0	50	1.00
1592430--1592462	14	2.4	14	90	10	50	27	3	3	66	1.21
1592454--1592489	18	1.9	19	88	5	56	30	5	2	61	1.33
1596965--1596993	2	14.5	2	100	0	58	51	0	0	48	1.00
1603819--1603846	13	2.2	13	100	0	56	39	0	0	60	0.97
1603875--1603969	35	2.7	35	78	14	106	56	3	0	40	1.15
1603935--1603983	16	2.9	18	79	14	59	55	2	0	42	1.11
1603875--1603983	34	3.1	35	76	15	109	55	2	0	41	1.14
1605796--1605840	17	2.6	17	92	0	63	44	6	2	46	1.42
1608972--1609013	22	2.0	22	86	9	61	59	0	0	40	0.97
1617373--1617550	87	2.0	88	89	1	268	36	26	18	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619405--1619530	63	2.0	63	96	0	234	44	7	28	19	1.78
1621807--1621842	2	18.0	2	100	0	72	50	0	0	50	1.00
1622564--1622623	15	3.9	15	72	14	59	28	3	1	66	1.17
1623845--1623899	25	2.2	26	84	9	71	60	5	1	32	1.30
1623847--1623899	19	2.8	18	83	8	54	62	3	1	32	1.24
1623847--1623898	6	8.3	6	82	14	52	63	3	1	30	1.23
1623847--1623898	13	4.1	13	73	11	54	63	3	1	30	1.23
1624121--1624200	32	2.5	32	82	10	92	45	3	0	51	1.19
1625900--1625961	32	1.9	32	83	6	81	51	0	1	46	1.10
1628713--1628747	3	11.7	3	100	0	70	65	0	0	34	0.93
1630529--1630575	2	23.5	2	100	0	94	51	0	0	48	1.00
1631816--1631862	23	2.0	23	83	8	58	59	6	6	27	1.46
1632154--1632206	27	1.9	28	84	3	72	50	1	0	47	1.12
1632202--1632265	21	3.0	20	74	17	58	67	3	1	28	1.15
1633138--1633175	3	12.7	3	100	0	76	68	0	0	31	0.90
1633531--1633571	15	2.6	16	88	7	57	56	0	17	26	1.41
1633773--1633810	13	3.1	12	88	11	51	44	2	0	52	1.14
1637738--1637797	27	2.2	27	87	0	84	51	6	11	30	1.64
1637904--1637966	18	3.4	18	71	8	56	50	0	0	49	1.00
1637904--1637947	22	2.0	21	83	16	54	52	0	0	47	1.00
1637907--1638006	37	2.7	35	72	14	85	54	1	1	44	1.13
1638590--1638637	24	2.0	24	88	8	71	41	4	6	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639398--1639423	3	8.7	3	100	0	52	34	0	0	65	0.93
1640967--1641016	19	2.7	20	81	12	70	60	0	6	34	1.21
1641008--1641129	50	2.6	48	79	15	121	55	0	0	43	1.05
1641010--1641101	16	5.6	16	70	22	57	52	0	1	46	1.07
1641072--1641129	7	7.9	7	76	17	55	63	0	0	36	0.94
1641070--1641129	15	3.9	15	72	10	59	63	0	0	36	0.95
1641044--1641129	29	3.0	29	75	14	90	61	0	0	38	0.96
1641070--1641129	22	2.7	23	73	17	54	63	0	0	36	0.95
1650747--1650780	13	2.7	13	90	4	52	0	8	0	91	0.43
1667927--1667953	3	9.0	3	100	0	54	66	0	0	33	0.92
1674641--1674717	28	2.8	28	81	14	74	29	0	1	68	0.97
1674667--1674718	24	2.1	24	86	10	70	28	0	0	71	0.87
1674657--1674717	26	2.2	29	83	13	76	27	0	0	72	0.85
1674805--1674873	24	2.9	24	75	16	63	44	1	1	52	1.19
1675148--1675210	31	2.0	31	87	0	90	20	15	15	47	1.82
1676321--1676346	3	8.7	3	100	0	52	69	0	0	30	0.89
1676439--1676495	22	2.4	24	83	13	66	59	1	0	38	1.08
1676452--1676513	16	3.8	15	72	17	52	61	0	1	37	1.06
1677217--1677288	25	2.7	26	79	12	67	38	0	2	58	1.13
1678912--1678968	6	9.2	6	83	11	71	35	0	1	63	1.05
1678913--1678968	21	2.9	20	87	10	73	33	0	1	64	1.04
1682792--1682966	45	3.9	45	82	0	188	33	24	17	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682798--1682970	90	1.9	90	83	0	220	33	23	17	25	1.96
1684966--1685017	22	2.4	22	84	9	63	61	0	0	38	0.96
1688080--1688110	2	15.5	2	93	0	53	48	0	3	48	1.17
1700682--1700708	2	13.5	2	100	0	54	51	48	0	0	1.00
1713203--1713241	14	2.9	14	82	17	55	71	0	0	28	0.86
1720406--1720446	21	1.9	22	85	5	57	31	7	51	9	1.62
1727906--1727936	2	15.5	2	100	0	62	48	0	51	0	1.00
1729496--1729526	3	10.3	3	100	0	62	67	32	0	0	0.91
1730686--1730739	23	2.3	23	81	15	58	53	1	1	42	1.22
1730709--1730741	15	2.3	14	94	5	57	54	0	0	45	0.99
1730879--1730920	2	20.5	2	90	4	66	45	2	2	50	1.27
1731595--1731638	2	22.0	2	100	0	88	50	0	50	0	1.00
1733090--1733128	19	2.1	19	100	0	78	43	15	25	15	1.86
1738839--1738901	4	16.8	4	82	12	71	50	17	0	31	1.46
1738836--1738914	4	19.8	4	89	0	59	49	13	0	36	1.43
1738836--1738907	14	5.4	14	79	11	80	50	15	0	34	1.44
1738836--1738911	18	4.3	18	90	5	120	50	14	0	35	1.43
1739414--1739625	104	2.0	104	94	0	370	38	20	16	24	1.93
1742811--1742891	18	4.4	19	76	14	64	39	0	1	59	1.05
1742823--1742867	20	2.4	18	85	10	56	42	0	0	57	0.98
1742825--1742899	18	4.4	17	72	16	57	42	0	1	56	1.08
1742854--1742931	32	2.4	32	84	2	93	41	1	3	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748722--1748825	47	2.2	48	92	3	174	20	19	15	45	1.86
1752287--1752311	8	3.1	8	100	0	50	64	0	12	24	1.27
1758408--1758443	12	2.8	13	83	8	56	47	0	5	47	1.25
1759044--1759078	17	2.2	16	90	10	54	45	8	0	45	1.34
1760003--1760048	21	2.2	21	100	0	92	19	23	8	47	1.77
1762068--1762100	2	16.5	2	100	0	66	48	0	51	0	1.00
1765476--1765501	4	6.5	4	100	0	52	23	0	0	76	0.78
1765650--1765682	2	16.5	2	100	0	66	51	0	0	48	1.00
1771021--1771063	19	2.3	19	84	8	52	58	0	0	41	0.98
1771002--1771101	23	4.3	24	68	23	63	54	0	0	46	1.00
1771000--1771099	33	3.1	32	79	13	116	55	0	0	45	0.99
1771120--1771177	10	5.7	10	82	8	64	56	1	1	39	1.19
1771138--1771180	2	21.0	2	80	4	50	55	0	2	41	1.12
1782346--1782376	2	15.5	2	100	0	62	48	0	0	51	1.00
1785532--1785573	2	21.0	2	100	0	84	50	0	0	50	1.00
1788729--1788763	2	18.0	2	94	5	63	48	0	0	51	1.00
1789492--1789537	2	23.0	2	100	0	92	50	0	0	50	1.00
1791044--1791145	52	2.0	52	92	0	168	31	15	16	36	1.91
1791342--1791375	2	17.0	2	100	0	68	50	0	0	50	1.00
1795950--1795994	10	4.2	11	81	18	51	24	0	0	75	0.80
1796998--1797090	8	11.4	8	72	21	68	37	0	1	61	1.03
1797030--1797092	27	2.3	27	81	8	74	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800549--1800574	2	13.0	2	100	0	52	50	0	0	50	1.00
1800572--1800669	4	25.8	4	85	10	134	26	0	21	52	1.47
1801932--1801960	3	10.0	3	92	7	51	68	0	0	31	0.89
1807088--1807116	2	14.5	2	100	0	58	51	48	0	0	1.00
1807277--1807313	2	18.5	2	88	0	56	48	5	0	45	1.25
1807116--1807492	182	2.1	182	98	0	736	38	14	10	36	1.81
1807459--1807492	6	5.7	6	96	0	50	50	8	0	41	1.34
1808136--1808235	50	2.0	49	90	7	159	39	9	22	30	1.84
1812148--1812184	2	18.5	2	94	0	65	48	2	0	48	1.15
1812328--1812385	29	2.0	29	100	0	116	48	6	20	24	1.74

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