genome.fa.s23.2.7.7.80.10.50.1000.151.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  151  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)
49826281--49826366	37	2.3	37	93	0	145	29	25	23	22	1.99
49827478--49827700	111	2.0	111	87	0	320	29	25	17	27	1.97
49834300--49834427	38	3.3	38	85	2	157	34	25	19	20	1.96
49850950--49850990	6	6.5	6	83	10	55	80	0	4	14	0.87
49850950--49850990	19	2.1	19	90	4	64	80	0	4	14	0.87
49850950--49850990	13	3.2	12	83	10	55	80	0	4	14	0.87
49857286--49857327	19	2.3	19	87	4	59	59	4	4	30	1.39
49859420--49859461	19	2.2	19	87	8	59	26	0	2	71	0.98
49859541--49859582	19	2.3	19	83	4	50	50	19	11	19	1.78
49860321--49860371	13	3.9	13	70	10	50	37	21	7	33	1.82
49860682--49860750	32	2.2	32	91	0	111	27	5	18	47	1.71
49862831--49863060	45	5.1	45	82	0	253	33	18	17	31	1.94
49864144--49864229	25	3.5	25	70	17	81	24	9	6	59	1.53
49864169--49864246	23	3.3	23	67	19	70	29	7	3	58	1.43
49864143--49864251	48	2.3	48	96	0	200	26	9	5	58	1.51
49865644--49865705	23	2.9	22	77	11	58	58	3	0	38	1.15
49868765--49868811	21	2.3	21	82	10	62	46	0	12	40	1.42
49871834--49871876	18	2.5	17	85	11	52	65	11	11	11	1.49
49876801--49876841	22	1.9	22	85	5	57	51	14	2	31	1.56
49887895--49887954	26	2.3	26	86	11	86	66	5	0	28	1.12
49887895--49887954	17	3.4	17	72	20	52	66	5	0	28	1.12
49887897--49887954	19	3.2	18	74	18	57	68	5	0	25	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49914540--49914586	18	2.6	18	75	21	53	42	2	0	55	1.12
49917910--49918039	60	2.2	59	86	8	174	30	16	23	29	1.97
49927880--49927942	23	2.5	25	85	15	94	68	9	9	12	1.40
49927885--49927936	23	2.3	23	100	0	104	69	7	11	11	1.37
49929218--49929314	3	31.7	3	74	12	72	30	2	6	60	1.32
49929219--49929299	31	2.7	30	80	14	87	28	0	7	64	1.20
49929206--49929299	25	3.7	25	80	13	95	31	0	6	61	1.21
49934545--49934695	34	4.5	33	86	0	158	42	15	12	29	1.84
49934545--49934672	68	1.9	68	88	0	193	40	14	13	31	1.85
49935456--49935504	25	2.0	25	87	0	71	34	12	10	42	1.76
49937201--49937498	147	2.0	149	94	2	519	34	5	12	47	1.62
49937586--49937932	174	2.0	174	95	1	633	22	14	20	43	1.87
49937954--49937982	11	2.5	12	94	5	51	17	24	0	58	1.38
49940583--49940615	3	11.0	3	100	0	66	33	33	0	33	1.58
49942021--49942205	72	2.6	72	88	5	268	55	15	5	23	1.60
49946010--49946068	28	2.1	28	100	0	118	49	20	0	30	1.49
49949160--49949204	20	2.2	21	84	4	56	44	8	11	35	1.71
49952075--49952127	27	2.0	27	96	0	97	43	33	22	0	1.54
49952074--49952134	15	4.3	15	77	12	65	39	37	22	0	1.55
49952074--49952134	27	2.3	27	88	0	95	39	37	22	0	1.55
49952163--49952201	18	2.2	18	86	9	53	30	0	43	25	1.55
49966306--49966661	178	2.0	179	96	0	660	26	21	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49970670--49970699	15	2.0	15	93	0	51	70	0	0	30	0.88
49971123--49971182	16	3.8	16	95	0	102	40	1	28	30	1.66
49971121--49971192	16	4.5	16	91	0	99	40	4	26	29	1.75
49981067--49981091	12	2.1	12	100	0	50	48	8	8	36	1.62
49985661--49985717	27	2.1	28	90	3	89	38	1	10	49	1.48
49986409--49986451	19	2.2	20	88	12	63	18	4	0	76	0.95
49994455--49994594	39	3.6	39	87	0	199	15	25	21	38	1.92
50000742--50000835	39	2.4	39	80	7	109	19	23	19	38	1.93
50000767--50000824	19	2.9	21	69	21	52	18	22	17	41	1.90
50001523--50001556	12	2.9	12	91	4	52	79	0	0	20	0.73
50008542--50009356	4	203.8	4	100	0	1630	25	0	25	49	1.50
50016184--50016226	20	2.2	20	83	8	52	60	18	0	20	1.36
50018143--50018228	25	3.5	25	70	17	81	59	6	9	24	1.53
50018121--50018229	48	2.3	48	96	0	200	58	5	9	26	1.51
50018126--50018203	23	3.3	23	67	19	70	58	3	7	29	1.43
50019312--50019541	45	5.1	45	81	2	246	31	17	18	33	1.94
50019327--50019571	45	5.5	44	78	6	167	30	17	19	32	1.95
50019390--50019558	90	1.9	90	81	4	207	33	18	16	31	1.93
50021622--50021690	32	2.2	32	91	0	111	47	18	5	27	1.71
50022199--50022325	40	3.2	40	74	14	145	48	2	3	45	1.34
50022167--50022325	79	2.0	80	97	1	302	47	1	5	45	1.35
50022987--50023031	16	2.6	18	86	10	58	71	2	0	26	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50022990--50023031	19	2.2	19	87	8	59	71	2	0	26	0.98
50025124--50025165	19	2.3	19	87	4	59	30	4	4	59	1.39
50031461--50031501	6	6.5	6	83	10	55	14	4	0	80	0.87
50031461--50031501	13	3.2	13	86	3	57	14	4	0	80	0.87
50031461--50031501	19	2.1	20	90	4	66	14	4	0	80	0.87
50048602--50048702	38	2.7	38	83	11	127	22	19	24	32	1.97
50055341--50055563	111	2.0	111	87	0	320	27	17	25	29	1.97
50055492--50055697	45	4.7	44	70	10	143	25	21	23	28	1.99
50056675--50056760	37	2.3	37	93	0	145	22	23	25	29	1.99
50059531--50059670	25	5.6	25	83	2	149	32	24	25	17	1.97
50060420--50060467	18	2.8	17	84	9	62	77	12	0	10	1.00
50063831--50063858	13	2.2	13	100	0	56	21	14	0	64	1.29
50066121--50066163	20	2.2	20	100	0	86	13	4	34	46	1.65
50071336--50071470	41	3.3	41	91	4	211	29	23	19	27	1.98
50075364--50075560	98	2.0	98	95	0	358	26	10	25	37	1.88
50086831--50087510	44	15.8	44	70	11	374	29	19	22	28	1.98
50086916--50087124	89	2.4	88	80	6	210	30	20	22	26	1.98
50087052--50087240	84	2.2	84	90	0	297	26	20	21	31	1.98
50087052--50087291	84	2.8	84	83	4	234	27	19	23	29	1.98
50086862--50087457	301	2.0	300	92	0	985	29	20	21	28	1.98
50087748--50087774	14	1.9	14	100	0	54	29	29	22	18	1.97
50088043--50088186	72	2.0	72	97	0	270	34	11	13	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50088653--50089048	199	2.0	199	94	2	697	20	20	18	39	1.92
50089826--50090019	98	2.0	98	89	0	298	27	8	25	38	1.85
50090424--50090732	43	7.3	42	73	8	239	33	22	15	29	1.94
50090437--50090590	84	1.8	84	83	2	202	32	22	15	29	1.95
50090420--50090735	127	2.5	127	90	2	483	33	22	15	29	1.95
50093575--50093626	21	2.4	21	87	3	68	25	25	34	15	1.95
50096477--50096501	13	1.9	13	100	0	50	64	4	0	32	1.12
50113275--50113445	89	1.9	88	79	6	186	37	14	10	37	1.81
50113812--50113899	9	9.1	9	68	18	52	31	2	2	63	1.19
50133211--50133305	29	3.2	29	77	3	100	30	11	15	42	1.83
50133828--50133935	31	3.5	31	67	9	85	45	14	12	26	1.82
50133837--50134000	62	2.6	62	88	0	229	45	13	12	29	1.80
50140880--50140979	45	2.2	45	85	0	128	36	19	21	24	1.95
50141184--50141251	34	2.0	34	88	0	100	42	14	14	27	1.85
50141195--50141272	34	2.3	34	86	4	104	43	15	12	28	1.83
50145159--50145197	20	1.9	21	89	5	62	43	7	5	43	1.55
50148585--50148682	51	1.9	52	87	2	144	38	15	10	35	1.81
50154883--50154939	28	2.1	26	84	12	71	66	1	3	28	1.18
50161950--50161982	15	2.2	15	89	10	50	42	45	6	6	1.53
50165097--50165139	19	2.3	19	84	8	52	23	20	13	41	1.88
50169415--50169553	44	3.2	44	67	11	113	27	23	23	26	2.00
50169447--50169584	43	3.2	43	66	15	111	28	20	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50169411--50169820	88	4.7	86	84	5	429	27	21	23	26	1.99
50169459--50169597	44	3.2	43	68	11	111	24	21	25	28	1.99
50169411--50169828	170	2.4	174	82	5	481	27	21	23	26	1.99
50170682--50170714	15	2.2	15	89	10	50	42	45	6	6	1.53
50189779--50189863	29	3.0	27	72	11	66	32	11	2	52	1.50
50194743--50194784	19	2.2	19	87	8	59	71	0	21	7	1.09
50194763--50194809	23	2.0	24	87	4	69	68	0	19	12	1.21
50195837--50195911	23	3.3	23	90	0	114	21	20	25	33	1.97
50196040--50196113	38	2.0	37	86	7	105	44	1	21	32	1.61
50198549--50198660	44	2.5	44	80	0	125	31	19	23	25	1.98

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