genome.fa.s36.2.7.7.80.10.50.1000.9.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

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   

This is table  9  of  28  ( 3342 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)
1404243--1404290	23	2.1	23	100	0	96	50	0	4	45	1.21
1404584--1404714	17	8.1	16	68	25	64	60	0	0	39	0.97
1404586--1404666	15	5.6	15	78	17	75	61	0	0	38	0.96
1404610--1404717	36	3.2	32	71	18	85	62	0	0	37	0.96
1404610--1404667	16	3.6	16	86	11	75	63	0	0	36	0.94
1404626--1404678	15	3.4	15	82	10	61	62	0	0	37	0.96
1404629--1404717	26	3.4	28	83	10	116	60	0	0	39	0.97
1404585--1404712	21	5.7	21	68	18	71	60	0	0	39	0.97
1408769--1408794	2	13.0	2	100	0	52	50	0	0	50	1.00
1409356--1409396	16	2.4	17	88	12	66	24	0	0	75	0.80
1409352--1409409	27	2.1	27	83	0	71	29	1	0	68	0.99
1409596--1409642	21	2.2	21	81	7	51	38	0	4	57	1.18
1409603--1409647	11	4.2	10	85	5	54	40	0	2	57	1.11
1409818--1409885	27	2.4	29	76	18	81	39	0	2	57	1.14
1412669--1412728	28	2.2	27	82	14	70	38	0	6	55	1.27
1413917--1413979	33	1.9	33	96	0	117	46	9	6	38	1.62
1421580--1421605	12	2.2	12	100	0	52	53	7	0	38	1.30
1426106--1426220	57	2.0	57	93	3	196	55	3	14	26	1.55
1439038--1439093	28	2.0	27	86	10	78	53	0	1	44	1.11
1441669--1441773	31	3.6	28	73	19	81	39	0	0	59	1.11
1441700--1441773	29	2.5	30	82	6	89	37	0	1	60	1.05
1441763--1441815	27	2.0	25	82	13	63	26	1	1	69	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441990--1442016	4	6.8	4	100	0	54	48	0	0	51	1.00
1442447--1442476	6	4.8	6	92	8	51	33	0	0	66	0.92
1442448--1442473	13	2.0	13	100	0	52	30	0	0	69	0.89
1443754--1443806	24	2.2	24	80	6	63	64	1	1	32	1.15
1443926--1443957	2	15.5	2	93	6	55	50	0	3	46	1.17
1444267--1444294	3	9.3	3	100	0	56	64	0	0	35	0.94
1444541--1444598	29	2.0	29	82	0	71	56	0	0	43	0.99
1444581--1444634	27	2.0	26	82	10	65	38	0	7	53	1.29
1444644--1444693	24	2.0	24	84	7	64	36	0	2	62	1.07
1444808--1444849	15	2.6	17	81	11	52	45	0	2	52	1.13
1449699--1449742	17	2.5	17	85	10	54	36	0	2	61	1.09
1450581--1450664	23	3.7	23	75	18	63	64	2	3	29	1.23
1450581--1450642	32	1.9	32	83	6	81	64	1	3	30	1.19
1453633--1453689	19	2.9	19	75	10	60	36	0	1	61	1.07
1455905--1455932	2	14.0	2	100	0	56	50	0	0	50	1.00
1456572--1456608	19	1.9	19	94	0	65	45	5	0	48	1.25
1464613--1464638	3	8.7	3	100	0	52	30	0	0	69	0.89
1464671--1464766	45	2.1	45	84	3	122	23	2	19	54	1.55
1465222--1465269	17	2.7	18	83	6	62	35	0	0	64	0.94
1467645--1467735	20	4.6	19	82	5	92	31	17	13	37	1.88
1467646--1467736	39	2.3	40	83	5	105	31	17	13	37	1.88
1470355--1470474	52	2.3	51	82	4	143	29	15	28	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1470407--1470552	78	1.9	78	84	2	195	28	14	30	26	1.95
1470489--1470602	51	2.2	51	84	9	144	33	10	24	31	1.89
1470350--1470635	130	2.2	130	81	8	325	32	13	26	27	1.94
1470727--1470870	51	2.8	51	81	6	184	34	11	23	30	1.91
1473176--1473295	20	6.7	19	72	27	104	41	15	15	27	1.87
1473176--1473278	33	3.1	33	97	0	188	40	14	16	28	1.88
1473195--1473258	13	5.4	13	75	21	77	40	15	15	28	1.88
1473242--1473365	20	5.8	20	73	17	88	41	14	17	26	1.88
1474520--1474646	59	2.2	59	87	5	177	25	24	1	48	1.60
1479584--1480544	154	6.3	153	78	8	730	37	21	17	23	1.93
1479861--1480644	157	5.0	154	80	7	672	38	21	17	22	1.93
1481817--1481867	25	2.2	22	82	10	57	0	17	11	70	1.16
1482846--1482878	16	2.1	16	94	0	57	0	39	0	60	0.97
1482978--1483014	18	2.0	19	89	5	58	5	10	0	83	0.79
1487803--1487865	33	1.9	33	87	6	92	38	11	14	36	1.81
1488292--1488322	2	15.5	2	93	0	53	48	3	0	48	1.17
1489862--1489908	16	2.9	16	90	0	67	44	27	21	6	1.76
1490853--1490898	24	1.9	24	86	0	65	26	6	23	43	1.78
1491336--1491396	16	3.9	16	73	4	52	52	19	11	16	1.74
1491324--1491388	31	2.1	32	88	2	96	49	23	13	13	1.78
1492340--1492382	19	2.3	19	84	8	52	67	0	0	32	0.91
1492341--1492382	10	4.2	10	81	9	50	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494700--1494734	12	2.9	12	86	0	52	8	8	0	82	0.83
1501614--1501673	27	2.4	25	86	10	79	48	1	3	46	1.28
1501659--1501689	11	2.7	11	95	5	53	45	0	0	54	0.99
1503044--1503077	2	17.0	2	100	0	68	50	0	0	50	1.00
1504307--1504433	68	1.9	68	93	0	218	38	25	17	18	1.92
1509561--1509591	2	15.5	2	100	0	62	51	0	0	48	1.00
1513072--1513126	23	2.3	23	84	6	65	49	1	0	49	1.11
1513865--1513933	31	2.2	33	79	12	81	52	1	0	46	1.09
1513944--1513988	21	2.1	21	100	0	90	48	0	13	37	1.42
1514679--1514876	50	4.0	50	84	1	245	29	19	18	32	1.96
1514688--1514876	100	1.9	100	86	4	274	30	17	19	32	1.95
1519317--1519459	50	2.9	50	87	2	198	32	16	18	32	1.94
1521282--1521320	16	2.3	18	91	8	64	33	2	0	64	1.08
1528174--1528235	29	2.1	29	100	0	124	35	9	17	37	1.83
1529692--1529724	14	2.3	15	89	5	50	87	12	0	0	0.53
1530511--1530589	32	2.4	33	79	6	90	43	1	1	54	1.16
1530585--1530635	15	3.3	15	76	17	52	33	1	1	62	1.17
1530583--1530624	15	2.6	17	75	17	54	38	0	0	61	0.96
1531339--1531378	17	2.4	17	87	8	55	50	2	0	47	1.14
1532854--1532901	22	2.2	22	82	17	64	75	2	0	22	0.91
1532856--1532901	23	2.0	22	88	12	67	76	2	0	21	0.90
1533460--1533528	37	1.9	35	82	5	84	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534486--1534544	21	2.8	21	80	12	59	33	5	1	59	1.29
1534499--1534551	21	2.5	21	81	9	54	33	5	0	60	1.20
1535592--1535641	26	2.0	25	88	11	75	28	0	0	72	0.86
1535597--1535641	13	3.7	12	88	11	65	26	0	0	73	0.84
1537644--1537698	3	18.3	3	100	0	110	67	0	0	32	0.91
1537828--1537876	2	24.5	2	91	0	80	51	0	2	46	1.12
1538280--1538307	14	2.0	14	100	0	56	14	0	0	85	0.59
1547235--1547259	13	1.9	13	100	0	50	32	16	16	36	1.90
1547326--1547388	10	6.1	10	71	14	56	41	7	25	25	1.82
1547417--1547468	20	2.6	20	96	0	95	38	17	13	30	1.88
1548447--1548485	20	2.0	20	95	5	71	41	5	0	53	1.23
1549516--1549560	17	2.6	17	89	0	63	2	17	24	55	1.53
1549577--1549683	48	2.2	48	88	0	151	11	15	21	51	1.75
1549884--1550000	45	2.6	45	94	0	207	21	0	25	52	1.46
1549928--1550004	23	3.4	23	64	10	59	22	0	25	51	1.48
1561798--1561823	2	13.0	2	100	0	52	50	0	0	50	1.00
1561924--1561967	20	2.3	18	81	11	52	45	0	0	54	0.99
1562491--1562525	6	5.8	6	86	0	52	45	0	2	51	1.16
1562545--1562633	31	2.8	31	75	17	85	49	0	0	50	1.00
1566486--1566629	27	5.4	27	65	25	74	53	0	0	46	1.00
1566519--1566563	17	2.6	17	80	19	58	62	0	0	37	0.96
1566491--1566630	16	8.0	17	68	16	63	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567057--1567101	22	2.0	22	87	8	65	42	0	0	57	0.98
1567242--1567295	5	11.2	5	78	21	62	35	3	0	61	1.14
1567236--1567297	10	6.6	9	79	20	56	37	3	0	59	1.13
1567170--1567297	19	6.7	19	67	20	72	40	1	0	57	1.08
1568135--1568204	27	2.4	29	79	11	81	51	4	2	41	1.36
1572410--1572439	13	2.3	13	94	0	51	30	16	10	43	1.81
1572455--1572562	20	5.8	19	76	18	102	28	15	12	42	1.84
1572493--1572517	13	1.9	13	100	0	50	32	8	16	44	1.76
1572473--1572537	33	2.0	33	93	0	112	29	13	13	43	1.83
1572455--1572557	53	1.9	53	84	7	138	29	14	13	42	1.84

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