genome.fa.s10.2.7.7.80.10.50.1000.12.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   168   169   170   171   172   

This is table  12  of  172  ( 20562 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)
3856420--3856595	46	3.8	46	76	10	187	19	21	30	28	1.97
3856416--3856588	93	1.9	93	91	0	283	19	21	30	27	1.98
3862549--3862606	21	2.8	21	78	17	59	68	8	0	22	1.16
3862819--3862942	43	2.9	44	81	9	132	22	15	25	36	1.93
3867460--3867518	27	2.2	27	84	6	75	64	3	1	30	1.20
3867460--3867518	14	4.4	14	72	6	50	64	3	1	30	1.20
3867812--3867918	52	2.0	53	87	7	153	23	7	17	51	1.71
3874834--3874902	25	2.8	23	82	14	59	44	1	0	53	1.09
3874845--3874904	19	3.1	19	79	11	68	45	1	0	53	1.10
3874879--3874935	23	2.5	22	80	5	69	38	1	0	59	1.08
3875070--3875095	12	2.2	12	100	0	52	69	0	7	23	1.14
3881013--3881080	30	2.3	30	92	0	118	19	30	30	19	1.96
3882784--3882886	21	4.6	22	70	20	63	39	2	5	51	1.41
3887628--3887736	56	1.9	56	81	7	132	26	16	26	30	1.97
3893339--3893425	43	2.0	43	88	0	129	28	18	16	36	1.92
3896249--3896353	29	3.7	27	78	12	102	26	16	9	47	1.77
3896248--3896406	59	2.7	59	86	4	205	24	15	11	49	1.77
3900422--3900589	40	4.2	40	82	8	148	27	27	20	24	1.99
3900457--3900642	80	2.3	80	83	9	229	27	27	20	23	1.99
3900459--3900642	40	4.6	40	83	7	205	27	27	21	23	1.99
3907957--3908134	27	6.6	27	84	3	205	29	28	15	26	1.96
3907978--3908133	82	1.9	81	88	3	233	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3914075--3914240	83	2.0	83	98	0	323	31	24	18	25	1.97
3915586--3915763	27	6.6	27	82	3	178	29	27	15	27	1.96
3915586--3915763	54	3.3	55	82	3	200	29	27	15	27	1.96
3917166--3917331	84	2.0	83	98	1	323	20	22	16	39	1.92
3923051--3923227	27	6.6	27	82	4	178	26	15	27	30	1.96
3923052--3923206	82	1.9	80	85	5	213	26	15	27	30	1.96
3923048--3923227	82	2.2	80	81	3	209	26	15	27	30	1.96
3926633--3926841	38	5.0	38	72	18	148	29	24	16	28	1.97
3926678--3926806	48	2.7	48	85	1	179	31	23	17	28	1.97
3927996--3928191	100	2.0	100	100	0	392	28	18	11	41	1.86
3929334--3929502	27	6.3	27	81	7	155	31	28	14	25	1.95
3929334--3929502	54	3.1	54	80	7	182	31	28	14	25	1.95
3936381--3936428	21	2.3	21	78	7	53	37	39	0	22	1.55
3936513--3936557	14	3.2	14	81	12	65	48	26	0	24	1.51
3937843--3937961	60	2.0	60	94	0	211	34	0	10	54	1.36
3937845--3937953	33	3.5	32	69	24	97	36	0	10	53	1.35
3938157--3938347	107	1.8	102	83	9	251	27	1	16	54	1.49
3938335--3938366	15	2.1	16	94	5	57	37	0	6	56	1.25
3938474--3938511	16	2.3	17	81	9	51	18	2	5	73	1.14
3940728--3940763	17	2.1	18	89	5	56	30	5	0	63	1.17
3940704--3940843	74	1.9	75	91	5	230	27	6	7	57	1.51
3946140--3946199	22	2.6	22	82	10	59	21	5	3	70	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3967437--3967475	20	2.0	20	84	0	51	15	23	35	25	1.94
3970287--3970315	15	2.0	15	93	6	51	20	13	6	58	1.58
3971185--3971241	30	1.9	30	85	0	78	28	35	26	10	1.89
3978294--3978381	17	5.4	16	72	20	67	34	30	20	14	1.93
3978648--3978716	35	1.9	36	91	2	113	27	24	4	43	1.73
3980757--3981028	134	2.0	136	90	2	431	38	13	14	33	1.86
3984330--3984444	27	4.1	27	74	8	97	61	1	3	33	1.23
3984340--3984436	9	10.6	9	71	23	51	61	2	4	31	1.26
3984314--3984437	8	14.0	8	71	21	54	61	2	3	33	1.25
3984767--3984821	19	2.8	20	75	10	60	40	1	0	58	1.09
3984741--3984800	26	2.3	25	83	13	68	43	1	1	53	1.20
3984745--3984835	38	2.5	35	75	8	92	38	3	1	57	1.23
3984877--3985047	90	1.9	94	85	7	244	38	8	16	36	1.79
3985580--3985631	20	2.9	18	73	15	54	61	0	1	36	1.07
3985648--3985683	18	1.9	19	94	5	65	52	5	0	41	1.24
3988127--3988197	21	3.4	21	66	14	65	52	8	9	29	1.64
3988120--3988203	42	2.0	42	100	0	168	47	9	14	28	1.75
3988613--3988653	21	2.0	21	85	0	55	53	7	2	36	1.42
3988692--3989412	3	240.3	3	100	0	1442	66	0	33	0	0.92
3989404--3989450	19	2.5	19	85	0	58	42	10	40	6	1.65
3989442--3989500	20	3.1	19	77	20	61	67	0	30	1	1.00
3989447--3989511	24	2.7	23	69	9	58	70	0	26	3	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3989811--3989896	40	2.1	42	87	8	124	31	4	11	52	1.58
3989817--3989883	20	3.3	20	69	8	55	34	5	7	52	1.54
3989679--3989905	76	2.9	79	75	9	239	33	4	11	50	1.58
3992762--3992807	8	5.9	8	84	5	67	23	0	26	50	1.50
3995122--3995530	161	2.6	159	90	2	633	29	10	7	52	1.63
3995536--3995585	16	3.2	16	70	13	50	22	8	4	66	1.35
3995765--3995802	20	1.9	20	94	0	67	73	5	2	18	1.14
3995917--3995959	20	2.2	20	87	8	61	2	30	0	67	1.03
3995886--3995940	15	3.6	16	79	20	73	0	30	0	69	0.89
3997256--3997293	6	6.3	6	100	0	76	50	34	15	0	1.45
4004583--4004649	26	2.6	26	76	4	82	23	23	20	31	1.98
4004756--4004810	28	2.0	28	88	0	83	21	21	23	32	1.98
4007620--4007728	13	8.3	13	70	2	65	42	4	17	35	1.70
4007754--4007818	13	5.0	13	79	7	69	44	0	13	41	1.44
4007753--4007808	27	2.1	26	93	3	94	50	0	12	37	1.41
4007753--4007795	14	3.1	14	80	6	61	53	0	9	37	1.33
4009687--4009809	50	2.5	50	78	11	137	34	22	21	20	1.96
4009775--4009893	24	4.9	24	69	10	80	37	20	25	16	1.93
4009851--4009940	24	3.7	25	69	10	69	33	18	28	18	1.95
4017559--4017617	30	2.0	30	100	0	118	45	3	10	40	1.54
4021903--4021950	14	3.4	14	77	11	62	22	14	39	22	1.91
4021903--4021958	28	2.0	28	96	0	103	23	14	39	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4027454--4027486	17	1.9	17	100	0	66	24	27	6	42	1.78
4029262--4029659	200	2.0	200	98	0	778	24	22	17	35	1.95
4031173--4031222	17	2.9	17	93	0	91	26	26	6	42	1.78
4031866--4031910	17	2.6	19	70	23	53	55	0	2	42	1.12
4033435--4033483	20	2.6	19	80	6	55	44	16	4	34	1.66
4035436--4035577	70	2.1	67	83	9	171	44	5	16	33	1.71
4041251--4041298	22	2.3	21	85	7	62	27	4	8	60	1.44
4041848--4041877	14	2.1	14	93	0	51	16	43	0	40	1.48
4043304--4043374	36	2.0	36	91	0	115	47	14	11	26	1.77
4058292--4058521	95	2.5	93	86	4	311	39	10	17	33	1.83
4059952--4060042	39	2.2	40	84	7	121	54	5	2	37	1.36
4066777--4066895	54	2.2	54	100	0	238	42	5	13	38	1.66
4080592--4080635	22	2.0	23	81	4	54	52	2	0	45	1.13
4085894--4086270	203	1.9	203	94	1	666	31	13	20	33	1.92
4088243--4088305	20	3.0	20	80	8	72	14	25	19	41	1.89
4092255--4092416	51	3.1	51	85	10	234	32	15	22	30	1.95
4094742--4094792	24	2.1	24	100	0	102	25	29	3	41	1.73
4095150--4095220	36	2.0	36	94	0	124	25	5	28	40	1.78
4095422--4095485	19	3.3	19	87	8	92	35	9	15	39	1.80
4095423--4095498	21	3.7	21	91	3	111	38	10	13	38	1.79
4095707--4095751	23	2.0	23	81	0	54	22	0	15	62	1.33
4096027--4096086	23	2.6	22	79	7	66	31	3	8	56	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4098004--4098147	69	2.1	69	85	2	191	38	14	22	25	1.92
4099177--4099220	23	1.9	23	81	9	54	59	15	0	25	1.37
4107556--4107658	42	2.5	42	83	0	125	35	18	19	26	1.95
4107792--4108361	189	3.0	189	96	1	1027	33	21	10	34	1.87
4108683--4108790	57	1.9	57	94	0	189	44	12	14	27	1.82
4114711--4114773	18	3.5	17	77	10	63	73	1	20	4	1.11
4121262--4121311	21	2.4	21	86	3	66	28	10	20	42	1.84
4122271--4122331	29	2.1	29	96	0	113	19	31	22	26	1.98
4122622--4122722	50	2.0	50	94	0	175	35	13	19	30	1.91
4125221--4125376	82	1.9	82	90	0	249	23	17	16	42	1.89

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   168   169   170   171   172