genome.fa.s23.2.7.7.80.10.50.1000.5.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   

This is table  5  of  167  ( 19959 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)
1362430--1362512	42	2.0	43	85	2	114	8	3	46	40	1.51
1362407--1362513	7	15.0	7	70	3	61	8	2	46	42	1.48
1362541--1363531	7	135.9	7	85	7	1093	12	3	43	40	1.58
1368596--1368638	21	2.0	21	86	0	59	46	0	4	48	1.22
1369007--1369032	9	2.9	9	100	0	52	23	0	7	69	1.14
1375223--1375262	21	2.0	20	90	5	62	27	17	17	37	1.92
1378267--1378317	22	2.3	23	87	9	72	15	0	11	72	1.12
1378267--1378306	12	3.6	12	77	16	50	15	0	12	72	1.12
1378297--1378347	27	2.0	25	84	7	66	29	0	5	64	1.17
1404361--1404400	21	1.9	21	84	0	53	72	7	2	17	1.19
1407219--1407253	16	2.2	16	89	0	52	14	28	0	57	1.38
1413028--1413061	17	2.0	17	100	0	68	29	11	17	41	1.85
1419286--1419377	22	4.2	22	78	2	96	10	25	22	41	1.86
1419281--1419377	43	2.2	44	79	3	115	10	23	22	43	1.84
1422458--1422491	12	2.9	12	86	4	52	32	0	0	67	0.91
1422707--1422755	22	2.2	22	81	0	62	61	10	10	18	1.55
1422715--1422754	11	3.6	11	79	0	53	57	10	12	20	1.63
1423078--1423140	32	2.0	32	96	0	117	49	0	6	44	1.28
1427689--1427730	22	1.9	22	85	0	57	52	2	0	45	1.13
1427961--1427999	15	2.5	15	87	4	51	56	2	0	41	1.13
1428031--1428109	41	1.9	41	86	0	113	63	1	3	31	1.20
1437788--1437821	14	2.4	14	85	14	52	73	14	11	0	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443739--1443772	14	2.4	14	85	14	52	73	14	11	0	1.10
1446711--1446751	18	2.3	18	87	8	57	48	0	21	29	1.50
1446861--1446886	3	8.7	3	100	0	52	69	0	0	30	0.89
1454725--1455105	190	2.0	189	94	0	672	33	19	20	26	1.96
1455275--1455487	55	3.9	53	75	10	160	51	12	5	30	1.62
1455275--1455480	112	1.8	112	80	1	250	51	12	5	30	1.61
1459287--1459343	30	1.9	30	100	0	114	29	19	7	43	1.77
1464226--1464288	31	2.2	28	81	13	74	34	3	0	61	1.12
1464231--1464290	29	2.0	31	87	6	88	35	3	0	61	1.12
1468261--1468327	33	2.0	33	91	0	107	40	11	14	32	1.83
1470557--1470625	31	2.2	30	80	12	77	39	10	17	33	1.83
1473368--1473440	35	2.1	35	94	0	128	43	6	15	34	1.73
1476446--1476515	24	2.8	26	76	10	65	50	2	1	45	1.25
1493064--1493120	28	2.0	28	83	16	73	47	14	3	35	1.61
1496065--1496130	26	2.6	25	83	11	80	27	3	4	65	1.27
1496065--1496113	25	2.0	25	88	8	73	30	2	2	65	1.15
1496199--1496238	2	20.5	2	84	5	55	42	0	0	57	0.98
1502650--1502728	32	2.5	32	87	0	104	50	10	2	36	1.50
1505716--1505760	21	2.1	22	87	4	65	15	8	0	75	1.03
1506451--1506517	36	1.9	34	81	6	80	37	2	5	53	1.41
1506656--1506718	17	3.5	17	72	10	54	30	6	6	57	1.49
1506641--1506731	35	2.6	33	74	19	96	30	4	6	58	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1506757--1506803	23	2.0	24	83	8	60	21	8	4	65	1.37
1507064--1507117	3	18.3	3	86	3	65	33	7	0	59	1.25
1507325--1507375	3	16.3	3	78	11	50	31	3	1	62	1.24
1507325--1507375	15	3.5	15	84	10	61	31	3	1	62	1.24
1511822--1511850	11	2.6	11	100	0	58	34	10	17	37	1.84
1514186--1514244	30	1.9	31	82	3	75	71	5	16	6	1.26
1514354--1514390	18	2.1	18	100	0	74	40	10	5	43	1.63
1515464--1515557	32	3.0	32	80	13	90	54	6	0	39	1.26
1520045--1520080	12	3.0	12	95	0	63	27	25	5	41	1.77
1529985--1530203	75	2.9	76	83	3	284	33	16	19	30	1.94
1529967--1530200	74	3.1	73	82	4	279	32	15	17	33	1.92
1530117--1530293	90	2.0	88	87	4	257	29	15	16	37	1.90
1529880--1530381	239	2.1	240	88	2	756	30	15	18	34	1.92
1530224--1530374	77	1.9	78	82	2	187	31	16	21	30	1.96
1530302--1530468	91	1.8	91	84	2	228	27	18	19	34	1.95
1532551--1532578	12	2.3	12	100	0	56	39	0	0	60	0.97
1534657--1534710	21	2.6	21	84	0	72	12	33	33	20	1.91
1547955--1548018	28	2.3	28	83	5	76	29	26	18	25	1.98
1555272--1555323	26	2.0	26	100	0	104	34	15	11	38	1.83
1556261--1556300	14	2.5	17	73	23	50	20	55	12	12	1.69
1558563--1558641	25	3.3	25	79	16	112	34	17	7	40	1.78
1559008--1559162	18	9.0	17	65	22	74	42	1	1	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558765--1559191	120	3.5	120	94	1	739	41	1	3	53	1.27
1559054--1559096	22	1.9	23	85	4	61	37	0	2	60	1.10
1559143--1559207	25	2.5	27	76	16	66	38	1	3	56	1.24
1558765--1559303	120	4.5	120	89	5	727	42	2	3	51	1.31
1559247--1559281	18	2.0	17	88	5	52	45	0	0	54	0.99
1559247--1559301	15	3.4	16	80	16	53	47	0	1	50	1.11
1559517--1559573	16	3.5	16	95	4	105	35	40	0	24	1.56
1569211--1569249	18	2.2	17	86	4	51	69	2	0	28	1.02
1574392--1574416	13	1.9	13	100	0	50	56	0	8	36	1.29
1574544--1574616	26	3.0	23	72	16	58	63	0	6	30	1.21
1574570--1574635	26	2.5	26	82	0	69	65	3	4	27	1.27
1574783--1575049	26	10.4	26	65	19	89	58	4	7	30	1.44
1574996--1575049	24	2.2	26	86	6	76	62	1	1	33	1.16
1575905--1575951	16	2.9	16	79	20	53	70	6	12	10	1.33
1578141--1578184	17	2.7	16	86	13	63	43	20	0	36	1.52
1578835--1578870	11	3.3	11	88	0	54	0	22	0	77	0.76
1584206--1584271	31	2.3	27	78	17	69	45	16	3	34	1.63
1584149--1584269	62	2.0	62	80	6	138	42	13	4	39	1.66
1586249--1586356	15	7.2	15	65	12	69	45	7	21	25	1.78
1586245--1586356	30	3.7	30	90	4	172	46	7	21	25	1.76
1586245--1586365	60	2.0	60	91	3	199	45	6	22	25	1.76
1590942--1591019	15	5.2	15	70	11	70	43	7	23	25	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590935--1591019	30	2.8	30	96	0	152	44	7	23	24	1.78
1597260--1597302	10	4.4	10	79	5	52	55	0	0	44	0.99
1597260--1597299	19	2.1	19	85	0	53	57	0	0	42	0.98
1599005--1599055	21	2.4	22	83	3	59	31	3	7	56	1.46
1599631--1599671	21	1.9	23	85	14	61	31	7	4	56	1.48
1599629--1599677	21	2.4	21	80	19	59	34	6	4	55	1.44
1601437--1601477	18	2.3	18	87	4	57	65	4	0	29	1.13
1601439--1601503	26	2.5	27	85	5	80	67	6	0	26	1.13
1601464--1601513	17	2.7	19	81	6	59	72	6	0	22	1.07
1601587--1601773	63	3.0	63	100	0	374	34	12	12	39	1.82
1602278--1602345	19	3.5	19	80	6	66	33	2	2	60	1.27
1602269--1602345	10	7.9	10	72	8	61	31	3	2	62	1.27
1612231--1612272	22	1.9	22	85	9	59	57	0	0	42	0.99
1612304--1612353	10	5.2	10	79	16	52	68	0	2	30	1.01
1612303--1612353	17	2.7	20	73	20	54	68	0	1	29	1.00
1613587--1613644	18	3.2	17	75	22	55	67	1	3	27	1.17
1614550--1614617	31	2.2	31	84	5	84	33	13	26	26	1.93
1632296--1632329	16	2.1	16	100	0	68	32	38	11	17	1.86
1633228--1633258	15	2.1	15	93	0	53	83	0	0	16	0.64
1633253--1633368	30	3.9	29	81	7	117	31	21	2	43	1.66
1637440--1637569	67	1.9	67	98	0	251	39	17	19	23	1.92
1643234--1643379	73	2.0	73	97	0	274	26	17	25	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645823--1646198	187	2.0	187	87	4	544	41	16	22	19	1.90
1650416--1650835	109	3.9	109	98	0	788	33	19	17	30	1.95
1651422--1651472	22	2.3	22	93	0	84	50	0	9	39	1.35
1651424--1651482	22	2.8	21	85	10	68	52	1	8	37	1.42
1653640--1653866	44	5.2	44	68	12	187	27	24	21	26	1.99
1653414--1654000	88	6.7	88	92	2	773	25	23	22	28	1.99
1656154--1656183	8	3.6	8	95	4	51	13	0	13	73	1.10
1657300--1657527	114	2.0	114	97	0	429	25	20	20	34	1.96
1658790--1658838	19	2.5	20	80	6	57	42	12	18	26	1.85
1660222--1660423	109	1.9	109	93	2	352	33	19	17	29	1.95

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   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167