genome.fa.s23.2.7.7.80.10.50.1000.146.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  146  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)
48380006--48380034	14	2.1	14	100	0	58	17	0	6	75	1.01
48381801--48381885	26	3.3	26	73	3	93	23	25	15	35	1.94
48382370--48382429	27	2.2	28	93	3	104	28	13	8	50	1.70
48384366--48384409	22	2.0	22	86	0	61	52	0	0	47	1.00
48384433--48384469	16	2.3	17	86	13	60	56	0	0	43	0.99
48395079--48395254	71	2.5	70	83	3	203	27	14	22	34	1.94
48395254--48395493	72	3.3	72	92	2	376	22	14	22	40	1.90
48395272--48396082	235	3.5	233	84	7	945	27	16	22	33	1.95
48395940--48395973	14	2.4	14	90	0	50	20	14	8	55	1.65
48395792--48396430	162	3.8	161	81	9	555	25	18	21	34	1.96
48396103--48396130	14	2.0	14	100	0	56	14	21	7	57	1.61
48396060--48396388	91	3.6	91	97	0	613	23	20	22	34	1.97
48396194--48396221	14	2.0	14	100	0	56	14	21	7	57	1.61
48396285--48396312	14	2.0	14	100	0	56	14	21	7	57	1.61
48396674--48396814	72	1.9	73	89	1	221	22	14	23	39	1.90
48396953--48396986	14	2.4	14	95	0	59	17	14	8	58	1.61
48396878--48397057	89	2.0	88	90	1	279	23	17	20	39	1.92
48396966--48397870	78	11.7	76	81	9	834	27	16	20	35	1.94
48396967--48397272	73	4.1	71	79	8	254	28	16	21	33	1.95
48396647--48397870	311	3.9	313	82	9	1066	27	15	20	35	1.94
48397264--48397297	14	2.4	14	95	0	59	17	14	8	58	1.61
48397898--48398323	76	5.7	75	85	4	527	29	16	22	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48397898--48398307	148	2.7	148	84	4	518	30	16	21	31	1.95
48397898--48398375	76	6.4	72	83	7	295	29	16	22	32	1.95
48402622--48402649	14	2.0	14	100	0	56	14	21	7	57	1.61
48402636--48402825	73	2.6	72	89	3	274	31	15	21	32	1.94
48402727--48403213	127	3.8	126	77	11	536	27	15	21	35	1.94
48403257--48403456	73	2.8	71	82	2	238	31	13	21	33	1.92
48403476--48403510	14	2.5	14	95	0	61	17	14	8	60	1.58
48403329--48404172	177	5.1	162	86	9	975	26	16	20	37	1.93
48403635--48403676	14	2.9	15	85	7	59	14	14	7	64	1.48
48403638--48403687	14	3.6	14	81	7	57	20	12	4	64	1.43
48403812--48403853	14	2.9	15	85	7	59	14	14	7	64	1.48
48403815--48403864	14	3.6	14	81	7	57	20	12	4	64	1.43
48403845--48404124	73	3.8	73	86	2	389	29	15	20	33	1.94
48404138--48404179	14	2.9	15	85	7	59	14	14	7	64	1.48
48404141--48404190	14	3.6	14	81	7	57	20	12	4	64	1.43
48405767--48406060	102	2.9	102	100	0	588	25	15	12	45	1.82
48406611--48407156	45	11.6	44	68	15	236	29	20	22	27	1.98
48406649--48407400	143	5.3	143	93	0	1188	29	20	22	27	1.98
48407224--48407636	45	8.9	45	72	9	269	30	18	24	26	1.98
48407224--48407636	185	2.2	185	88	2	630	30	18	24	26	1.98
48407224--48407623	97	4.3	92	77	9	377	30	18	23	27	1.98
48407459--48407674	97	2.2	97	85	2	292	30	16	24	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48410554--48410592	14	2.8	14	92	0	60	30	20	10	38	1.86
48413610--48413707	25	3.8	26	77	9	94	29	22	27	20	1.98
48415232--48415277	4	11.5	4	85	0	56	67	4	4	23	1.27
48420134--48420169	14	2.6	14	90	0	54	22	47	0	30	1.52
48420359--48420427	25	2.8	25	95	0	120	17	42	14	26	1.87
48422206--48422304	26	3.9	26	77	11	91	22	25	19	33	1.97
48422802--48422831	15	2.0	15	100	0	60	33	0	20	46	1.51
48424741--48424782	21	2.0	21	81	9	50	23	14	0	61	1.32
48425392--48425508	55	2.1	58	88	6	177	30	18	8	41	1.81
48427061--48427173	43	2.7	41	76	10	113	29	18	19	32	1.96
48430505--48430591	25	3.5	24	80	9	88	35	18	24	21	1.95
48430503--48430608	25	4.3	24	74	14	74	36	17	24	20	1.94
48436752--48436807	20	3.0	20	70	24	59	35	0	5	58	1.21
48436730--48436793	14	4.3	15	70	20	53	37	1	3	57	1.24
48439190--48439230	19	2.2	19	86	4	57	9	9	19	60	1.55
48442776--48442825	25	2.0	26	84	11	68	12	10	8	70	1.35
48444063--48444116	27	2.0	27	82	7	65	33	7	3	55	1.45
48447797--48447893	41	2.4	41	87	1	151	32	24	25	16	1.96
48448001--48448043	7	6.0	7	81	5	50	18	2	51	27	1.59
48447974--48448043	14	4.9	14	71	5	52	20	1	44	34	1.60
48448004--48448044	21	2.0	21	85	9	57	19	2	51	26	1.59
48448036--48448071	14	2.6	14	86	13	56	19	0	30	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48448706--48448749	16	2.8	16	80	16	56	72	2	0	25	0.96
48454748--48454782	15	2.3	15	90	0	52	40	0	0	60	0.97
48454889--48454922	11	3.1	11	91	8	52	41	0	11	47	1.40
48454966--48455018	27	2.0	27	82	14	65	28	5	3	62	1.35
48455032--48455163	43	3.1	43	85	1	176	23	19	26	30	1.98
48457573--48457641	28	2.4	29	76	13	79	37	2	7	52	1.44
48457573--48457645	29	2.5	30	77	6	87	36	2	6	53	1.42
48458208--48458268	9	6.9	8	75	17	50	37	1	1	59	1.17
48458208--48458268	17	3.4	18	77	6	61	37	1	1	59	1.17
48463347--48463395	25	1.9	26	84	12	66	36	4	8	51	1.51
48464097--48464142	3	15.3	3	100	0	92	0	32	0	67	0.91
48480031--48480085	25	2.2	26	83	3	67	16	10	7	65	1.45
48480646--48480742	46	2.1	47	92	1	160	42	4	17	36	1.69
48482264--48482361	23	4.3	23	90	2	162	31	26	21	20	1.98
48482271--48482359	45	2.0	45	95	0	160	31	26	22	19	1.97
48488987--48489012	13	2.0	13	100	0	52	30	38	23	7	1.83
48497777--48497817	20	2.0	20	100	0	82	19	9	14	56	1.66
48503377--48503720	171	2.0	171	99	0	679	31	25	15	26	1.96
48505205--48505247	9	4.6	9	86	13	52	34	2	9	53	1.46
48514636--48514702	30	2.2	31	86	5	91	52	2	0	44	1.16
48520550--48520583	18	1.9	17	88	5	50	32	14	0	52	1.42
48520804--48520985	46	4.0	46	87	4	233	21	24	13	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48526776--48526833	22	2.5	22	78	15	57	39	1	5	53	1.33
48527520--48527618	46	2.2	46	84	0	126	44	8	15	32	1.75
48527647--48528143	54	9.3	54	77	2	419	38	13	19	28	1.90
48527652--48528143	161	3.1	161	82	2	540	38	13	19	28	1.90
48533327--48533356	9	3.4	9	90	9	53	36	0	0	63	0.95
48533430--48533462	11	2.8	12	86	9	50	33	0	0	66	0.92
48535106--48535190	28	3.0	28	77	17	77	38	3	3	54	1.35
48540094--48540141	25	2.0	25	87	4	71	39	4	0	56	1.19
48540198--48540243	12	3.8	12	82	5	56	56	2	0	41	1.11
48540199--48540254	25	2.2	24	78	9	58	60	1	0	37	1.07
48540365--48540433	30	2.3	29	80	7	75	53	1	5	39	1.34
48540446--48540480	8	4.1	8	86	13	52	14	2	0	82	0.77
48540922--48540952	10	3.1	10	90	0	53	48	0	0	51	1.00
48541514--48541541	9	3.1	9	100	0	56	0	10	10	78	0.96
48542761--48542806	21	2.2	21	81	11	51	30	4	4	60	1.35
48542886--48542942	22	2.5	22	82	5	60	28	3	7	61	1.39
48545525--48545664	58	2.4	60	80	7	160	47	14	2	35	1.59
48547524--48547556	16	2.0	17	94	5	59	66	3	6	24	1.28
48548920--48548950	16	1.9	16	100	0	62	41	6	12	38	1.69
48548922--48548957	16	2.2	16	90	0	54	38	11	13	36	1.81
48551042--48551066	3	8.3	3	100	0	50	32	0	0	68	0.90
48555064--48555095	9	3.7	9	95	4	57	21	21	12	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48557684--48557809	63	2.0	63	96	0	234	22	26	23	28	1.99
48563329--48563411	44	1.9	44	85	2	114	30	21	24	24	1.99
48563414--48563917	44	11.5	44	70	5	329	35	20	23	20	1.96
48563395--48563926	88	6.1	88	89	1	827	35	20	23	20	1.96
48563395--48563929	175	3.1	175	94	0	919	35	20	23	20	1.96
48565373--48565584	3	69.3	3	67	16	62	26	9	2	61	1.39
48576523--48576558	17	2.1	17	90	10	56	55	0	5	38	1.23
48576523--48576569	17	2.7	18	83	12	53	57	0	4	38	1.18
48585938--48586105	40	4.1	41	77	6	128	42	20	18	19	1.90
48585968--48586105	41	3.4	40	72	6	109	43	19	18	18	1.88

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