genome.fa.s196.2.7.7.80.10.50.1000.11.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  11  of  47  ( 5587 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)
1459014--1459055	21	2.0	21	95	0	75	85	7	0	7	0.73
1459991--1460052	30	2.1	30	81	0	70	22	30	14	32	1.94
1460057--1460583	61	8.6	61	82	4	596	24	24	19	32	1.98
1460057--1460835	184	4.1	183	78	9	715	24	25	18	31	1.98
1460057--1460583	245	2.2	245	87	0	748	24	24	19	32	1.98
1460630--1460837	61	3.4	61	79	3	231	25	26	19	27	1.99
1460812--1460910	41	2.4	41	86	3	126	18	26	14	41	1.88
1460812--1460958	41	3.5	42	78	11	124	20	25	13	40	1.89
1460373--1460920	266	2.1	264	80	8	612	24	25	17	32	1.97
1460845--1460934	42	2.2	41	84	9	112	20	22	11	46	1.81
1461172--1461197	3	8.7	3	100	0	52	69	0	0	30	0.89
1464019--1464363	79	4.4	79	83	5	417	28	24	14	33	1.94
1464019--1464361	159	2.2	158	86	1	463	28	24	14	32	1.94
1464319--1464390	28	2.6	28	91	4	110	22	25	20	31	1.98
1464240--1464469	107	2.1	107	84	4	304	25	26	16	31	1.96
1467083--1467117	17	2.0	18	88	5	54	77	5	0	17	0.96
1467138--1467409	140	1.9	140	90	1	438	35	11	9	43	1.73
1467603--1467978	155	2.4	156	82	4	429	25	16	18	39	1.91
1469292--1469329	18	2.2	17	86	13	51	65	0	0	34	0.93
1470532--1470593	30	2.1	30	81	0	70	22	30	14	32	1.94
1470598--1470988	61	6.4	62	83	5	458	24	24	19	31	1.98
1470598--1470988	184	2.1	183	87	2	570	24	24	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1472743--1472787	23	2.0	23	100	0	90	57	0	0	42	0.98
1472744--1472785	12	3.6	12	87	6	68	54	0	0	45	0.99
1473457--1473546	26	3.0	31	72	21	84	36	1	8	53	1.40
1473485--1473661	74	2.4	74	85	1	232	35	1	11	51	1.49
1473672--1473859	93	2.0	96	85	7	260	32	4	12	49	1.62
1473765--1474905	73	16.0	72	77	10	974	32	2	11	53	1.50
1474081--1474351	133	2.0	133	94	1	472	29	1	12	56	1.46
1474158--1474351	71	3.0	62	73	15	183	29	1	11	57	1.43
1474171--1474347	33	5.3	33	68	20	100	31	1	11	55	1.45
1476382--1476436	20	2.8	20	80	0	65	41	12	10	34	1.78
1477191--1477971	32	25.6	30	81	6	583	21	18	29	30	1.97
1477207--1479099	28	65.8	28	83	6	579	27	16	29	27	1.97
1477239--1479181	56	33.9	57	81	7	741	27	16	29	27	1.97
1477295--1477999	124	5.8	125	80	10	649	21	18	29	30	1.97
1477193--1478005	92	8.9	92	80	7	706	21	18	28	30	1.97
1477223--1477984	156	5.0	152	84	4	801	21	18	28	30	1.97
1477940--1479237	83	15.6	83	87	3	1569	30	14	29	25	1.95
1477940--1479237	28	46.8	28	86	3	1583	30	14	29	25	1.95
1488955--1489020	17	3.8	18	70	18	59	33	1	33	31	1.67
1489544--1489608	32	2.0	33	87	3	96	24	16	16	41	1.89
1489663--1489725	33	1.9	32	87	12	92	38	15	17	28	1.91
1499749--1499821	16	4.5	16	82	1	74	45	34	9	10	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1499749--1499815	32	2.1	32	88	0	98	44	34	10	10	1.73
1501398--1501430	9	3.7	9	91	0	57	30	0	0	69	0.88
1501396--1501438	9	4.4	10	82	11	54	32	0	0	67	0.91
1505598--1505634	18	2.1	18	100	0	74	59	5	18	16	1.55
1506850--1506887	19	2.1	19	85	5	51	42	2	2	52	1.29
1508312--1508337	13	2.0	13	100	0	52	30	15	15	38	1.88
1508396--1508448	20	2.7	20	100	0	106	33	20	15	30	1.93
1510900--1510938	13	3.0	13	96	0	69	35	15	17	30	1.91
1510924--1511002	20	3.7	20	78	15	77	44	15	15	25	1.85
1514852--1514896	21	2.1	21	84	8	56	22	20	4	53	1.63
1517106--1517131	13	2.0	13	100	0	52	30	15	15	38	1.88
1517170--1517245	21	3.7	21	80	3	100	28	17	11	42	1.84
1517190--1517263	20	3.7	20	78	3	94	31	18	13	36	1.90
1517170--1517263	41	2.3	41	98	0	179	29	18	12	39	1.88
1520640--1520677	13	3.2	12	85	10	51	68	0	0	31	0.90
1521053--1521110	17	3.1	17	76	21	62	5	15	22	56	1.58
1521050--1521107	22	2.6	22	86	8	82	6	15	22	55	1.64
1521303--1521398	45	2.1	45	92	0	156	26	0	19	54	1.45
1521326--1521402	23	3.3	23	63	12	59	24	0	19	55	1.43
1521331--1521431	45	2.2	45	82	3	114	26	1	18	52	1.56
1522223--1522252	13	2.3	13	94	0	51	50	0	10	40	1.36
1524064--1524144	41	2.0	41	100	0	162	29	9	16	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1525888--1526342	150	3.0	150	78	5	502	40	19	15	24	1.91
1525831--1526346	155	3.4	154	78	5	528	39	18	15	25	1.91
1527918--1527943	13	2.0	13	100	0	52	38	15	15	30	1.88
1527900--1527963	32	2.0	33	87	3	94	40	17	14	28	1.88
1532009--1532038	15	2.0	15	93	0	51	50	13	23	13	1.77
1534263--1534308	21	2.2	20	81	11	58	32	19	4	43	1.71
1536694--1536719	13	2.0	13	100	0	52	38	15	15	30	1.88
1536676--1536739	32	2.0	33	87	3	94	40	17	14	28	1.88
1537498--1537532	17	2.0	18	88	5	54	11	8	8	71	1.31
1538062--1538524	164	2.8	162	76	11	426	49	9	10	30	1.70
1538090--1538524	165	2.6	162	77	10	411	49	10	10	29	1.70
1539309--1539357	22	2.3	21	86	10	64	28	2	10	59	1.41
1542745--1542795	20	2.6	20	90	3	77	41	9	17	31	1.82
1547634--1547673	20	2.0	20	90	0	62	32	12	10	45	1.75
1548061--1548099	18	2.2	18	90	0	60	38	0	0	61	0.96
1551745--1551800	21	2.7	21	100	0	112	35	10	17	35	1.85
1551925--1552070	52	2.8	52	94	0	247	30	19	17	33	1.94
1558225--1558249	3	8.3	3	100	0	50	36	32	0	32	1.58
1562342--1562374	16	2.0	17	88	5	50	81	9	0	9	0.87
1562964--1563078	20	5.8	20	82	0	122	33	14	12	39	1.84
1562964--1563080	60	2.0	60	91	0	189	33	15	11	39	1.84
1575940--1575995	16	3.4	16	77	18	53	78	8	12	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577007--1577217	33	6.5	33	84	10	231	20	31	13	34	1.92
1577007--1577217	66	3.2	64	86	8	266	20	31	13	34	1.92
1577202--1578091	65	13.7	65	92	3	1413	28	34	17	18	1.94
1578084--1578453	49	7.8	49	82	7	433	24	26	18	29	1.98
1578131--1578407	43	6.0	43	78	13	293	25	26	18	29	1.98
1578079--1578453	92	4.0	92	81	10	420	24	26	18	29	1.98
1578084--1578453	140	2.6	141	89	1	564	24	26	18	29	1.98
1578711--1578735	13	1.9	13	100	0	50	32	16	16	36	1.90
1587019--1587196	33	5.5	31	84	10	173	21	32	12	33	1.91
1587019--1587152	33	4.2	32	87	9	175	19	32	14	33	1.91
1587019--1587185	65	2.6	67	84	9	186	19	31	13	35	1.90
1587018--1587197	32	5.5	33	83	9	172	21	32	12	33	1.91
1587181--1588006	33	25.5	33	89	5	1233	28	34	17	18	1.94
1587185--1588006	65	12.7	64	92	3	1238	28	34	18	18	1.94
1587999--1588368	49	7.8	49	84	7	469	24	26	19	30	1.98
1588045--1588322	43	6.1	43	79	13	322	24	26	18	30	1.98
1587994--1588368	92	4.0	92	83	10	438	24	26	18	30	1.98
1587999--1588368	140	2.6	141	90	0	589	24	26	19	30	1.98
1589055--1589079	13	1.9	13	100	0	50	32	16	16	36	1.90
1593696--1593749	7	7.9	7	84	12	76	85	14	0	0	0.61
1593688--1593749	13	4.5	13	85	6	79	83	16	0	0	0.64
1593696--1593749	20	2.7	20	85	2	81	85	14	0	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1595023--1595375	28	12.5	28	81	5	327	30	29	16	23	1.96
1595342--1595427	32	2.7	31	72	12	84	29	30	16	24	1.96
1596496--1596639	20	6.7	20	74	18	76	31	13	13	41	1.82
1596486--1596622	70	2.0	70	85	2	186	29	13	13	43	1.82
1600055--1600088	15	2.3	15	90	10	52	52	0	2	44	1.16
1600588--1600631	23	1.9	23	81	9	54	61	4	2	31	1.28
1600775--1600827	19	2.8	20	75	13	60	56	3	0	39	1.17
1600728--1600834	20	5.8	18	71	18	78	51	7	0	40	1.36
1600709--1600856	19	7.6	20	68	21	57	47	7	1	43	1.39
1600946--1601375	219	2.0	218	83	7	539	46	7	5	40	1.56

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   35   36   37   38   39   40   41   42   43   44   45   46   47