genome.fa.s39.2.7.7.80.10.50.1000.10.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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   

This is table  10  of  27  ( 3195 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)
1517480--1518254	395	2.0	394	89	1	1176	31	18	13	36	1.90
1520053--1520828	395	2.0	395	89	1	1198	31	18	14	36	1.90
1525986--1527684	159	10.8	157	65	12	486	30	18	14	36	1.91
1525588--1528307	474	5.7	472	82	5	3270	30	18	14	36	1.90
1533285--1533403	42	2.8	42	92	0	193	8	46	2	42	1.47
1533318--1533393	12	6.9	11	75	15	52	9	48	2	39	1.49
1533309--1533394	24	3.8	24	72	17	85	10	45	2	41	1.51
1533300--1533370	18	3.6	18	69	20	52	9	43	2	43	1.52
1535383--1537934	159	16.1	157	66	12	509	31	18	14	36	1.90
1535021--1545509	476	22.1	475	83	3	12489	30	18	14	36	1.90
1537944--1545335	159	46.7	157	65	12	1418	30	18	14	37	1.90
1547023--1548314	646	2.0	646	99	0	2566	35	22	15	26	1.94
1553127--1553165	15	2.6	15	79	0	51	82	2	12	2	0.89
1553912--1553987	12	6.9	11	75	15	52	39	2	48	9	1.49
1553902--1554020	42	2.8	42	93	0	202	42	1	46	9	1.46
1553977--1554026	18	2.8	18	81	6	57	44	2	46	8	1.44
1559347--1559465	42	2.8	42	90	0	184	8	45	3	42	1.51
1559371--1559456	24	3.8	24	69	17	76	10	44	3	41	1.56
1565300--1565418	42	2.8	42	92	0	193	8	46	2	42	1.47
1565333--1565408	12	6.9	11	75	15	52	9	48	2	39	1.49
1565324--1565409	24	3.8	24	72	17	85	10	45	2	41	1.51
1565315--1565385	18	3.6	18	69	20	52	9	43	2	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571138--1571191	15	3.4	15	76	14	54	9	48	1	40	1.46
1571136--1571179	18	2.4	19	81	11	56	6	47	2	43	1.42
1571139--1571209	33	2.2	33	89	0	106	11	45	1	42	1.48
1571167--1571238	12	6.5	11	80	16	71	13	45	0	40	1.44
1571149--1571215	18	3.9	17	75	18	59	13	43	0	43	1.43
1571167--1571248	42	2.0	42	95	0	146	12	43	0	43	1.41
1571187--1571218	9	3.6	9	91	0	55	12	43	0	43	1.42
1572864--1574414	158	9.8	158	67	12	558	30	17	14	36	1.90
1572864--1574414	475	3.3	473	91	2	2296	30	17	14	36	1.90
1577038--1577076	9	4.3	9	81	12	53	43	0	30	25	1.55
1577040--1577074	3	11.7	3	87	0	52	40	0	31	28	1.57
1578730--1578757	12	2.3	12	100	0	56	35	0	21	42	1.53
1581687--1621218	159	250.3	159	64	15	5748	30	19	14	35	1.92
1593789--1597385	947	3.8	942	83	5	4428	30	19	14	35	1.92
1599106--1603206	471	8.7	477	83	6	4682	30	19	14	35	1.92
1602917--1603547	311	2.0	303	79	8	653	29	17	15	37	1.91
1603183--1604943	480	3.7	473	84	5	2144	31	19	14	35	1.92
1604599--1605261	317	2.1	309	85	5	888	31	18	15	34	1.92
1604907--1608576	476	7.7	476	83	5	4383	30	19	14	35	1.92
1614388--1616147	475	3.7	474	85	4	2271	31	19	14	34	1.92
1616115--1621294	476	10.9	475	84	4	6074	31	18	14	36	1.91
1620915--1622086	396	3.0	394	93	1	1886	31	18	13	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621706--1622561	475	1.8	475	88	2	1333	30	18	13	36	1.90
1621310--1623429	870	2.4	868	90	2	3329	30	17	14	36	1.90
1622181--1622955	395	2.0	395	88	1	1149	31	17	13	36	1.89
1622576--1624802	476	4.7	476	85	2	2936	31	17	14	37	1.89
1622576--1624802	954	2.3	952	85	2	2994	31	17	14	37	1.89
1625116--1625140	13	1.9	13	100	0	50	36	16	16	32	1.90
1625096--1625162	33	2.0	33	85	0	89	32	11	16	38	1.85
1625203--1625227	13	1.9	13	100	0	50	32	16	16	36	1.90
1625236--1625468	52	4.5	52	98	0	430	35	18	17	29	1.94
1628517--1630120	478	3.4	475	83	3	2008	30	18	14	37	1.90
1629679--1630560	443	2.0	443	86	1	1230	31	17	14	36	1.90
1631011--1631797	395	2.0	396	86	2	1089	30	17	14	36	1.90
1631418--1636506	954	5.4	944	75	10	4503	30	17	14	37	1.90
1631418--1634656	476	6.8	474	84	3	4183	30	17	14	37	1.90
1631416--1634447	159	19.1	160	67	11	973	30	17	14	37	1.90
1634277--1635051	395	2.0	395	87	1	1140	31	17	14	36	1.90
1635126--1636496	476	2.9	473	82	4	1567	30	18	14	37	1.90
1636126--1636901	395	2.0	396	87	2	1121	31	17	14	36	1.90
1635678--1637369	871	2.0	864	84	2	1991	30	17	14	36	1.90
1636522--1640458	475	8.1	473	72	12	2668	30	18	14	37	1.90
1638397--1638579	96	1.9	96	87	0	267	28	14	19	38	1.90
1640374--1640556	96	1.9	96	86	0	258	28	14	19	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640844--1641160	160	2.0	161	79	5	347	30	18	13	36	1.90
1642906--1643037	42	3.1	42	86	2	176	44	2	43	9	1.50
1651462--1663082	159	73.1	157	65	10	873	30	18	14	37	1.90
1649656--1663252	953	14.2	953	87	2	17775	30	18	14	37	1.90
1649656--1663243	476	28.5	476	86	2	17453	30	18	14	37	1.90
1668255--1668315	9	7.1	9	72	10	56	11	44	1	42	1.50
1668260--1668294	12	2.9	12	84	16	54	11	48	0	40	1.39
1668227--1668345	42	2.8	42	90	0	184	9	46	1	42	1.46
1668251--1668336	24	3.8	24	73	17	85	11	45	1	41	1.48
1669960--1671923	477	4.1	475	85	2	2503	30	18	13	37	1.90
1676902--1676936	18	1.9	18	88	0	52	11	40	0	48	1.39
1676921--1676981	9	7.1	9	70	10	56	14	42	0	42	1.46
1676926--1677002	12	5.9	12	72	26	59	14	44	0	41	1.45
1676893--1677011	42	2.8	42	89	0	166	11	42	0	44	1.46
1678782--1679488	158	4.4	159	67	14	371	31	16	14	37	1.89
1678905--1679665	159	4.8	154	69	13	429	31	17	14	36	1.90
1680581--1680670	20	4.7	19	78	10	78	31	16	12	40	1.85
1685363--1685402	18	2.3	18	87	8	57	37	20	7	35	1.81
1687292--1687334	20	2.2	20	86	0	59	23	32	27	16	1.96
1688605--1688647	22	2.0	22	100	0	86	37	4	32	25	1.77
1688606--1688652	22	2.2	22	92	3	78	38	4	31	25	1.75
1689919--1689946	12	2.3	12	100	0	56	35	0	21	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692564--1694446	477	3.9	477	88	2	2614	31	18	13	35	1.90
1694465--1697347	478	6.0	476	85	4	3658	30	19	14	35	1.92
1694465--1697347	953	3.0	954	84	4	3797	30	19	14	35	1.92
1696998--1697664	313	2.1	313	84	5	862	30	17	16	35	1.92
1694758--1700357	159	35.3	157	65	15	1473	30	19	14	35	1.92
1697311--1699089	476	3.7	474	85	3	2317	30	19	14	35	1.92
1698740--1699406	313	2.1	313	83	5	853	31	17	15	34	1.92
1699083--1700421	476	2.8	474	87	1	1883	30	19	14	36	1.91
1699979--1700856	435	2.0	433	89	2	1350	29	19	14	36	1.91
1700414--1704601	954	4.4	949	83	4	5318	31	19	14	35	1.91
1700414--1704605	478	8.8	475	84	4	5038	31	19	14	35	1.91
1704465--1706831	158	14.9	156	66	14	495	30	19	14	35	1.92
1704569--1707078	477	5.3	477	86	2	3421	30	19	14	35	1.92
1707363--1709071	158	10.7	157	66	13	519	30	19	15	35	1.92
1707102--1711858	478	10.0	477	85	3	6099	30	19	14	35	1.92
1707102--1711858	954	5.0	951	85	3	6044	30	19	14	35	1.92
1718350--1720722	477	5.0	475	82	6	2862	30	18	13	36	1.90
1720357--1721042	318	2.2	317	86	1	971	30	17	13	37	1.90
1720514--1721019	159	3.2	156	68	12	384	30	18	13	37	1.89
1720674--1725081	477	9.3	475	86	3	5494	30	19	13	36	1.90
1727828--1727865	15	2.5	15	83	12	51	47	0	15	36	1.46
1735527--1735631	12	8.8	12	66	27	55	39	0	46	13	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1735590--1735639	18	2.8	18	81	6	57	44	0	46	10	1.37
1735524--1735633	42	2.6	42	94	0	184	40	0	46	12	1.48
1740013--1740088	12	6.9	11	75	15	52	39	2	48	9	1.49
1740003--1740121	42	2.8	42	93	0	202	42	1	46	9	1.46
1740078--1740127	18	2.8	18	81	6	57	44	2	46	8	1.44
1750501--1750576	12	6.9	11	78	15	70	36	0	50	13	1.42
1750527--1750581	9	6.4	9	71	12	53	41	0	43	14	1.45
1750491--1750613	42	2.9	42	90	1	174	42	0	46	10	1.44
1750545--1750590	12	3.9	12	81	13	51	43	0	43	13	1.43
1755893--1757367	476	3.1	476	86	2	1969	31	19	13	35	1.90

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