genome.fa.s10.2.7.7.80.10.50.1000.120.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  120  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)
39870098--39870134	8	4.8	8	86	6	58	29	0	0	70	0.88
39871817--39871859	18	2.3	19	88	4	61	65	2	0	32	1.06
39876109--39876240	2	66.0	2	100	0	264	0	50	0	50	1.00
39883078--39883102	13	1.9	13	100	0	50	68	0	0	32	0.90
39883556--39883580	12	2.1	12	100	0	50	92	0	0	8	0.40
39883957--39884011	22	2.5	23	85	5	69	34	0	0	65	0.93
39884631--39884680	13	3.6	14	82	17	68	68	2	0	30	1.01
39884632--39884675	23	1.9	23	86	9	63	68	2	0	29	1.02
39890678--39890720	11	3.8	11	80	17	52	30	2	2	65	1.18
39890681--39890724	23	1.9	23	90	0	70	31	2	4	61	1.28
39899611--39899667	30	1.9	30	85	0	78	24	36	28	10	1.88
39903690--39903732	23	1.9	23	85	4	61	62	4	2	30	1.28
39905812--39905902	44	2.1	44	89	0	137	46	3	7	42	1.49
39906339--39906420	33	2.5	31	75	16	76	60	3	0	35	1.14
39906519--39906545	4	6.8	4	100	0	54	22	0	0	77	0.76
39908366--39908430	30	2.1	31	83	8	80	32	7	9	50	1.63
39908388--39908443	30	1.9	29	82	13	71	32	10	8	48	1.69
39913502--39913533	6	5.3	6	100	0	64	31	53	0	15	1.43
39919028--39919069	20	2.1	20	100	0	84	40	4	14	40	1.67
39919032--39919077	20	2.6	17	86	13	58	41	4	13	41	1.63
39922428--39922453	3	8.7	3	100	0	52	69	0	0	30	0.89
39925978--39926028	21	2.4	21	80	9	59	50	1	5	41	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39932785--39932824	18	2.3	18	86	4	55	27	5	0	67	1.11
39932794--39932828	18	1.9	18	100	0	70	34	2	0	62	1.10
39933711--39933736	5	5.2	5	100	0	52	19	0	0	80	0.71
39933959--39933984	5	5.2	5	100	0	52	19	0	0	80	0.71
39933679--39934174	248	2.0	248	100	0	992	36	9	8	45	1.68
39934504--39934552	20	2.4	20	82	3	62	26	6	2	65	1.27
39942257--39943683	72	18.7	72	77	13	1023	33	19	16	30	1.95
39942604--39942986	71	5.2	71	90	4	514	33	19	16	30	1.94
39942610--39943669	74	13.9	75	77	12	837	32	20	17	29	1.95
39942967--39943001	14	2.5	14	90	0	52	65	5	14	14	1.44
39942901--39943139	86	2.8	83	84	6	277	38	19	17	25	1.93
39942259--39943683	233	6.2	231	80	10	1087	33	19	16	30	1.95
39943310--39943683	149	2.5	146	90	3	538	31	20	16	31	1.95
39943693--39943860	69	2.4	71	84	5	202	32	22	13	30	1.93
39970296--39970336	21	2.0	21	85	9	57	21	4	21	51	1.67
39972322--39972486	43	3.8	44	74	11	137	32	26	17	24	1.97
39972317--39972486	86	2.0	85	80	10	195	32	25	17	24	1.96
39976103--39976128	13	2.0	13	100	0	52	53	0	15	30	1.42
39977932--39977996	30	2.2	30	94	0	112	23	4	12	60	1.51
39978115--39978142	11	2.5	11	100	0	56	75	0	0	25	0.81
39979287--39979317	13	2.3	14	94	5	55	61	6	0	32	1.21
39979766--39979793	14	2.0	14	100	0	56	21	7	28	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39980000--39980049	19	2.5	20	81	12	59	12	14	8	66	1.45
39981983--39982007	11	2.3	11	100	0	50	36	16	0	48	1.46
39985130--39985169	18	2.1	20	86	9	57	47	12	2	37	1.55
39994984--39995043	30	2.0	29	93	3	102	28	20	20	30	1.97
40000295--40000357	30	2.1	30	93	0	108	39	20	20	19	1.92
40000382--40000438	30	1.9	30	92	0	96	36	22	21	19	1.95
40000290--40000489	81	2.5	81	94	0	346	35	18	23	23	1.96
40001484--40001564	39	2.1	39	84	9	103	37	6	6	50	1.52
40007538--40007582	21	2.2	21	84	7	58	22	0	13	64	1.28
40021460--40021771	151	2.1	151	98	0	606	29	14	13	42	1.84
40023204--40023242	8	4.6	8	84	9	51	35	0	0	64	0.94
40023204--40023258	17	3.2	16	78	12	56	38	0	0	61	0.96
40023204--40023258	18	3.2	16	82	12	65	38	0	0	61	0.96
40026870--40026929	28	2.0	30	81	15	72	30	5	6	58	1.45
40027331--40027370	21	1.9	21	90	10	64	42	0	0	57	0.98
40027589--40027651	26	2.4	25	81	7	72	58	1	0	39	1.07
40027993--40028062	30	2.4	29	80	7	79	34	20	7	38	1.80
40044874--40045027	84	1.8	84	84	2	211	42	18	7	32	1.77
40045143--40045214	36	2.0	36	83	5	92	65	2	4	27	1.25
40045227--40045591	183	2.0	181	82	5	439	39	9	12	38	1.76
40045644--40045698	28	2.0	28	82	7	67	29	5	1	63	1.27
40045827--40046041	85	2.5	85	75	11	224	32	9	18	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40048582--40048626	15	2.9	15	80	6	54	17	4	6	71	1.25
40051696--40051726	16	1.9	16	93	0	53	32	19	0	48	1.49
40057218--40057346	65	2.0	64	96	1	240	32	37	4	25	1.77
40059494--40059522	2	14.5	2	100	0	58	0	48	0	51	1.00
40062041--40062066	3	8.7	3	100	0	52	30	0	0	69	0.89
40062369--40062434	29	2.3	29	80	12	73	59	3	4	33	1.33
40062622--40062663	21	2.0	21	85	0	57	26	21	9	42	1.83
40062881--40062905	13	1.9	13	100	0	50	36	0	0	64	0.94
40071643--40071707	31	2.1	31	94	5	114	23	13	9	53	1.68
40071742--40071905	82	2.0	82	98	0	319	33	10	15	39	1.83
40079126--40079183	22	2.6	22	81	7	64	41	17	5	36	1.72
40079162--40079306	19	7.9	19	89	9	230	36	13	11	38	1.81
40079162--40079298	54	2.5	54	100	0	274	36	13	11	38	1.81
40079425--40079463	21	1.9	20	84	5	51	10	2	15	71	1.23
40079656--40079791	45	3.0	45	82	2	184	26	25	14	33	1.95
40079835--40080118	78	3.6	78	95	0	478	23	25	18	33	1.97
40080289--40080684	78	5.1	78	99	0	783	24	24	17	33	1.97
40080832--40080993	89	1.8	89	84	5	222	27	24	18	30	1.98
40080685--40081327	220	2.9	220	96	0	1175	26	22	19	31	1.97
40081052--40081213	89	1.8	89	84	5	222	27	24	18	30	1.98
40085513--40085607	47	2.0	47	91	0	154	12	30	10	46	1.76
40089834--40089891	22	2.6	22	81	7	64	41	15	5	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40089870--40089941	19	3.9	19	89	10	123	36	15	11	37	1.83
40089885--40089920	16	2.4	14	83	16	54	36	16	11	36	1.84
40090060--40090098	21	1.9	20	84	5	51	10	2	15	71	1.23
40095826--40095890	22	3.0	22	80	8	64	44	7	1	46	1.41
40100668--40100795	47	2.7	47	81	0	148	32	27	17	22	1.96
40105213--40105238	8	3.2	8	100	0	52	26	26	0	46	1.53
40106686--40106728	21	2.0	21	100	0	86	34	13	9	41	1.77
40112644--40112725	43	1.9	43	90	5	130	31	28	18	21	1.97
40126729--40126833	6	17.5	6	73	11	72	23	16	14	45	1.84
40128097--40128144	6	7.7	6	78	17	53	79	0	16	4	0.89
40128097--40128144	13	3.8	12	76	17	53	79	0	16	4	0.89
40143664--40143730	34	2.0	34	88	2	100	28	23	22	25	1.99
40147644--40147742	42	2.4	42	81	8	121	20	32	29	18	1.96
40156142--40156257	45	2.6	45	90	1	189	31	19	24	25	1.98
40156395--40156602	27	7.7	27	82	0	245	43	15	13	27	1.84
40160129--40160234	54	2.0	54	88	0	158	26	18	13	41	1.87
40160926--40161079	29	5.3	29	82	4	157	23	27	11	37	1.89
40162492--40162583	39	2.3	39	88	5	132	25	28	22	23	2.00
40162473--40162636	40	4.1	40	80	10	176	24	27	23	25	2.00
40179367--40179424	16	3.6	16	97	0	107	51	29	12	6	1.65
40187059--40187151	43	2.2	41	83	12	109	30	25	17	26	1.97
40212460--40212571	46	2.4	46	81	8	129	35	15	20	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40213965--40214167	46	4.4	45	76	3	154	27	21	17	33	1.96
40216602--40217811	54	22.4	54	95	1	1930	30	22	6	40	1.79
40217801--40218050	27	9.2	26	71	11	110	38	19	10	31	1.86
40218083--40218147	27	2.4	27	84	0	85	36	18	23	21	1.95
40218854--40218920	20	3.3	20	93	4	109	38	10	19	31	1.85
40218970--40219105	52	2.7	51	94	5	233	27	22	23	26	1.99
40218970--40219105	26	5.3	26	89	3	199	27	22	23	26	1.99
40219238--40219329	42	2.2	42	88	0	130	30	13	20	35	1.91
40219353--40219423	31	2.3	31	97	0	133	30	16	25	26	1.97
40221186--40221212	2	13.5	2	100	0	54	51	48	0	0	1.00

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