genome.fa.s23.2.7.7.80.10.50.1000.144.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  144  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)
47873584--47873650	35	1.9	35	81	6	82	56	2	1	38	1.24
47873584--47873651	36	1.9	35	81	3	82	57	2	1	38	1.23
47874055--47874126	37	1.9	37	86	5	101	51	4	1	43	1.29
47874224--47874297	37	2.0	37	85	12	100	68	2	5	22	1.23
47874219--47874270	18	2.9	18	80	5	61	67	0	3	28	1.08
47874313--47874360	9	5.4	9	90	5	71	79	0	8	12	0.94
47880268--47880383	42	2.7	43	82	4	155	30	13	26	29	1.94
47883038--47883070	16	2.1	16	100	0	66	51	18	12	18	1.76
47886216--47886387	18	9.1	18	68	14	87	41	13	10	34	1.79
47886216--47886302	36	2.4	36	81	5	97	40	14	9	35	1.79
47886498--47886618	53	2.3	53	89	0	188	42	23	19	14	1.89
47886492--47886628	53	2.4	58	77	14	167	42	21	19	16	1.89
47888150--47888196	22	2.0	24	88	8	71	31	12	6	48	1.66
47892805--47892843	20	1.9	21	85	15	55	23	17	12	46	1.83
47894902--47894947	23	2.0	23	95	0	83	32	17	6	43	1.75
47896975--47897070	49	2.0	49	93	0	165	39	6	9	44	1.62
47902167--47902232	33	2.0	34	87	3	98	39	7	12	40	1.71
47904120--47904169	21	2.5	20	76	3	55	36	2	4	58	1.29
47905957--47906028	18	3.7	19	80	14	67	72	2	22	2	1.11
47905983--47906028	4	11.2	4	82	13	58	73	0	26	0	0.83
47905983--47906028	20	2.2	21	88	3	67	73	0	26	0	0.83
47906368--47906405	20	1.9	20	84	10	51	57	0	7	34	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47906439--47906479	19	2.1	20	86	4	57	56	2	9	31	1.45
47911031--47911080	19	2.6	19	93	3	82	28	28	0	44	1.55
47912075--47912151	5	14.8	5	74	15	50	3	19	3	72	1.16
47915787--47915859	23	3.1	23	82	3	92	32	19	24	23	1.97
47929215--47929254	20	2.0	20	100	0	80	30	40	5	25	1.77
47932820--47932860	21	2.0	21	90	0	64	19	29	21	29	1.98
47935939--47935987	25	2.0	25	83	0	62	53	2	8	36	1.43
47935945--47935996	25	2.2	24	80	12	63	48	1	7	42	1.43
47936063--47936105	21	2.0	21	100	0	86	46	4	9	39	1.57
47940251--47940941	351	2.0	351	97	0	1292	29	14	14	41	1.85
47942357--47942408	26	2.1	25	89	7	79	51	0	0	48	1.00
47945334--47945379	21	2.2	21	84	7	58	39	2	4	54	1.32
47951355--47951414	15	4.0	15	76	8	59	16	6	71	5	1.25
47951980--47952018	18	2.2	18	85	0	51	17	10	35	35	1.84
47956890--47956931	21	2.0	21	86	9	59	59	0	4	35	1.19
47957359--47957404	21	2.1	21	84	8	56	47	4	2	45	1.34
47957423--47957466	23	1.9	23	90	9	72	61	2	0	36	1.09
47962214--47962257	10	4.4	10	88	5	63	22	9	0	68	1.18
47962214--47962271	20	2.8	20	77	17	64	24	8	1	65	1.30
47968679--47968741	15	4.2	14	80	13	72	23	0	1	74	0.90
47968691--47968742	9	5.3	9	80	19	52	26	0	0	73	0.84
47968678--47968742	23	2.8	23	81	11	71	26	0	1	72	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47968679--47968738	16	3.9	15	82	8	68	23	0	1	75	0.90
47968709--47968747	21	1.9	19	85	10	51	33	0	0	66	0.92
47969889--47970426	269	2.0	269	100	0	1076	31	10	20	37	1.86
47970617--47970655	20	2.0	20	84	0	51	20	12	2	64	1.40
47978907--47978959	24	2.2	25	82	3	63	39	9	5	45	1.60
47978913--47978962	25	2.0	24	88	3	73	38	10	4	48	1.56
47979882--47979920	14	2.8	14	100	0	78	35	20	7	35	1.81
47980072--47980347	133	2.1	133	88	0	417	28	21	22	27	1.99
47980248--47980863	168	3.7	168	95	0	1065	30	22	23	23	1.99
47981846--47981912	25	2.5	25	80	11	71	26	11	43	17	1.84
47983692--47984164	131	3.6	132	77	6	438	27	19	17	35	1.95
47995891--47996159	133	2.0	133	84	0	349	28	19	23	28	1.98
47996067--47996513	168	2.7	168	92	0	700	29	23	23	24	1.99
47997496--47997562	25	2.4	30	85	11	90	25	11	44	17	1.83
47999297--47999817	132	3.9	130	78	4	479	28	19	17	34	1.95
47999351--47999817	134	3.5	131	78	4	454	27	20	17	34	1.95
47999305--47999799	265	1.9	267	81	3	604	28	19	18	33	1.95
48013780--48013832	21	2.6	20	81	3	70	24	7	3	64	1.37
48016245--48016291	25	1.9	24	91	4	76	42	0	0	57	0.98
48016244--48016306	31	2.1	31	83	13	80	44	0	0	55	0.99
48016250--48016318	31	2.2	31	80	12	79	46	0	0	53	1.00
48016287--48016348	20	2.9	22	81	13	67	45	1	0	53	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48020495--48020519	5	5.0	5	100	0	50	20	20	60	0	1.37
48020967--48020995	13	2.1	14	93	6	51	58	0	0	41	0.98
48021951--48022005	25	2.1	27	83	12	71	40	5	0	54	1.23
48024016--48024052	3	12.3	3	100	0	74	67	0	0	32	0.91
48033728--48033780	25	2.2	24	86	3	70	39	16	24	18	1.91
48034869--48034904	18	2.0	18	100	0	72	38	22	16	22	1.93
48036368--48036599	49	4.7	49	79	3	248	29	25	18	26	1.98
48040114--48040301	100	1.9	100	90	0	304	29	23	19	27	1.98
48040114--48040301	49	3.8	49	86	2	259	29	23	19	27	1.98
48042045--48042080	18	2.0	18	88	0	54	52	19	8	19	1.70
48047558--48047595	12	3.0	13	92	7	69	78	5	0	15	0.91
48047700--48047724	13	1.9	13	100	0	50	80	4	0	16	0.87
48049654--48049841	100	1.9	100	90	0	304	29	23	19	27	1.98
48049654--48049841	49	3.8	49	86	2	259	29	23	19	27	1.98
48056851--48056888	12	3.0	13	92	7	69	78	5	0	15	0.91
48063994--48064095	50	2.0	51	86	3	143	44	18	23	13	1.86
48064422--48064455	16	2.1	16	100	0	68	23	8	5	61	1.47
48065459--48065554	44	2.2	45	87	7	135	27	14	30	28	1.95
48065614--48065700	44	2.0	44	90	0	138	28	14	28	27	1.96
48065792--48065877	44	2.0	44	88	4	129	29	15	27	27	1.96
48065352--48065998	178	3.7	176	83	6	728	27	17	27	27	1.98
48065837--48066084	133	1.9	134	82	2	320	25	16	29	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48065971--48066089	44	2.7	44	74	8	107	24	15	31	28	1.96
48066480--48066517	20	2.0	20	89	5	60	65	10	2	21	1.35
48068117--48068177	32	2.0	28	84	12	77	24	6	4	63	1.38
48068127--48068177	16	3.2	16	67	10	50	23	7	3	64	1.37
48069419--48069499	25	3.2	24	77	10	74	35	19	16	28	1.93
48069443--48069512	25	2.8	25	74	8	70	38	22	10	28	1.87
48071236--48071263	9	3.1	9	100	0	56	78	0	0	21	0.75
48074234--48074510	138	2.0	138	99	0	545	31	14	22	32	1.94
48074575--48074678	31	3.4	31	78	7	131	41	0	3	53	1.25
48074506--48074618	47	2.4	45	76	17	122	38	1	3	56	1.27
48081888--48081912	12	2.1	12	100	0	50	0	16	0	84	0.63
48082427--48082464	20	2.0	20	84	5	51	65	7	10	15	1.45
48086845--48086964	51	2.4	51	89	0	177	39	12	22	25	1.89
48090241--48090360	51	2.4	51	89	0	177	39	12	22	25	1.89
48093289--48093326	19	2.0	20	89	5	60	42	10	23	23	1.85
48095370--48095798	3	143.7	3	70	13	192	62	2	6	28	1.33
48095355--48095429	15	4.6	17	83	8	61	65	0	6	28	1.18
48095500--48095745	38	6.4	35	70	18	129	63	1	6	28	1.29
48095631--48095706	22	3.4	22	81	15	77	71	0	5	23	1.07
48095817--48095856	16	2.4	16	87	4	53	65	0	10	25	1.24
48098678--48098804	42	3.0	42	86	6	170	29	26	14	29	1.95
48098911--48099090	31	5.8	31	90	0	279	27	26	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48099157--48099186	15	2.0	15	100	0	60	33	20	26	20	1.97
48099108--48099236	65	2.0	65	96	1	242	28	22	16	32	1.95
48109337--48109391	22	2.4	24	82	14	62	60	1	1	36	1.18
48115509--48115570	31	2.0	31	84	12	83	54	11	9	24	1.65
48116613--48116687	26	2.7	27	80	16	82	50	4	8	37	1.50
48116717--48116788	30	2.4	29	77	11	83	54	2	12	30	1.52
48116896--48116955	18	3.2	18	81	9	75	60	0	8	31	1.27
48123966--48124030	26	2.6	25	73	22	64	49	3	10	36	1.53
48126604--48126637	3	11.7	3	93	6	61	67	0	0	32	0.91
48131517--48131879	181	2.0	181	100	0	726	36	19	7	37	1.79

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