genome.fa.s4.2.7.7.80.10.50.1000.146.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   

This is table  146  of  198  ( 23681 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)
46456625--46456685	22	2.8	22	87	0	68	14	52	18	14	1.75
46459285--46459338	22	2.3	24	87	9	76	18	22	16	42	1.89
46463841--46463877	18	2.1	18	89	0	56	24	32	24	18	1.97
46466168--46466229	22	2.8	22	85	0	79	19	25	16	38	1.92
46467186--46467229	15	2.9	14	81	15	52	31	0	0	68	0.90
46467186--46467240	17	3.5	15	81	16	58	29	0	1	69	0.99
46469728--46469781	28	1.9	28	88	0	81	29	24	27	18	1.98
46469999--46470233	32	7.4	32	79	2	240	37	20	21	20	1.95
46470236--46470289	26	2.1	26	85	0	72	37	22	22	18	1.95
46470277--46470340	27	2.4	27	80	12	71	29	23	26	20	1.99
46470405--46470486	24	3.5	24	77	12	80	50	21	6	21	1.71
46470421--46470491	23	3.0	23	81	2	70	49	23	7	19	1.73
46471767--46471814	21	2.3	21	78	7	53	29	27	27	16	1.97
46472375--46472432	28	2.0	29	86	3	82	41	13	8	36	1.76
46472626--46472949	71	4.6	71	80	1	344	33	20	22	23	1.97
46472682--46472957	36	7.8	36	72	6	177	33	21	22	22	1.97
46473708--46473746	3	14.0	3	84	15	57	28	0	0	71	0.86
46473708--46473746	8	4.7	9	84	15	57	28	0	0	71	0.86
46488310--46488497	40	4.7	40	88	3	252	34	17	30	17	1.93
46488310--46488493	80	2.3	80	88	0	278	34	16	30	17	1.93
46488333--46488480	20	7.4	20	64	11	79	35	18	31	14	1.91
46492790--46492876	23	3.7	23	84	1	84	11	22	24	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46498554--46498706	45	3.4	45	89	0	234	40	21	18	18	1.91
46498558--46498733	45	4.2	39	77	17	149	39	21	19	19	1.93
46498908--46498995	40	2.2	40	84	9	110	37	18	7	36	1.80
46499715--46499740	11	2.4	11	100	0	52	0	42	7	50	1.31
46501678--46501772	47	2.0	47	95	0	172	40	17	11	30	1.86
46507605--46507668	14	3.9	17	74	15	62	50	15	7	26	1.71
46507605--46507666	32	2.0	32	83	3	81	48	16	8	27	1.74
46507581--46507661	18	4.8	17	76	11	69	44	18	8	28	1.79
46507599--46507670	17	4.4	17	74	13	69	50	15	9	25	1.74
46512049--46512100	9	6.8	8	78	22	58	23	0	7	69	1.14
46512050--46512106	22	2.5	24	86	13	86	22	0	7	70	1.11
46512049--46512105	29	2.0	28	86	13	80	22	0	7	70	1.11
46512700--46512750	16	3.4	15	81	15	52	64	1	0	33	1.05
46512704--46512750	22	2.1	22	84	7	60	68	2	0	29	1.02
46513023--46513062	16	2.4	16	87	4	53	37	2	0	60	1.11
46516321--46516367	19	2.5	18	89	3	67	29	10	8	51	1.66
46517373--46517399	10	2.7	10	100	0	54	62	11	7	18	1.50
46518696--46518748	25	2.1	25	82	0	61	39	24	20	15	1.91
46518721--46518919	41	4.8	40	80	6	177	34	25	21	18	1.96
46529031--46529095	32	2.0	32	96	0	121	40	10	18	30	1.85
46529536--46529560	13	1.9	13	100	0	50	32	0	4	64	1.12
46530918--46530959	19	2.2	19	86	4	57	40	2	0	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46530820--46531036	97	2.3	96	77	7	226	49	3	3	43	1.36
46548680--46548722	2	21.5	2	100	0	86	48	0	0	51	1.00
46550941--46551031	24	3.7	24	94	4	155	39	21	20	17	1.92
46550899--46551031	49	2.8	50	84	6	161	40	21	21	15	1.91
46552459--46552540	8	10.5	8	69	23	59	58	3	0	37	1.16
46552453--46552536	5	16.6	5	73	23	61	58	3	0	38	1.16
46552455--46552537	24	3.4	24	78	11	80	59	3	0	37	1.15
46555072--46555110	19	2.1	19	100	0	78	20	5	10	64	1.44
46556164--46556189	3	8.7	3	100	0	52	34	0	0	65	0.93
46561307--46561364	30	1.9	30	82	6	73	36	6	27	29	1.83
46561707--46561863	50	3.0	50	85	5	197	24	20	30	24	1.98
46562954--46562984	13	2.4	13	94	0	53	32	0	12	54	1.38
46563079--46563321	50	4.8	50	94	0	414	26	21	30	20	1.98
46564637--46564756	49	2.4	50	76	6	129	30	20	25	25	1.99
46566420--46566485	33	2.0	33	100	0	132	36	6	18	39	1.75
46566769--46566847	33	2.4	33	95	2	142	64	2	15	17	1.40
46569232--46570891	830	2.0	830	99	0	3293	42	20	13	23	1.88
46572621--46572799	76	2.4	76	83	1	216	32	19	21	26	1.97
46572674--46572791	40	3.0	40	70	9	109	33	20	20	26	1.97
46579758--46579791	17	2.0	17	94	0	59	14	23	14	47	1.82
46583912--46583972	17	3.5	17	88	4	86	55	9	0	34	1.33
46586555--46586640	45	1.9	45	95	0	154	51	17	12	18	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46600130--46600245	61	1.9	59	85	3	160	54	3	3	38	1.34
46613360--46613410	18	2.9	17	82	5	66	19	5	1	72	1.15
46613360--46613409	6	8.3	6	81	0	55	18	6	2	74	1.12
46615858--46615967	41	2.7	41	88	2	168	33	21	21	22	1.97
46616942--46616989	25	1.9	25	100	0	96	33	8	0	58	1.28
46618989--46619040	19	2.7	19	79	5	61	25	0	3	71	1.03
46618989--46619037	6	7.8	6	80	8	53	20	0	4	75	0.96
46619346--46619396	25	2.0	26	88	3	77	52	5	1	39	1.37
46626840--46626876	12	3.1	12	100	0	74	43	16	24	16	1.87
46627448--46627487	21	2.0	21	85	5	55	30	0	25	45	1.54
46629897--46629933	15	2.4	16	82	13	51	62	0	2	35	1.10
46633906--46633934	6	4.8	6	100	0	58	17	31	34	17	1.93
46657593--46657656	29	2.2	30	80	5	76	34	7	17	40	1.78
46657602--46657659	29	2.0	29	89	0	89	37	10	17	34	1.84
46659310--46659358	16	3.1	16	81	0	71	36	8	34	20	1.82
46659572--46659613	15	2.7	16	82	14	52	52	2	0	45	1.13
46659581--46659622	15	2.9	15	82	10	52	52	0	0	47	1.00
46659607--46659794	61	3.1	61	70	14	199	48	6	1	42	1.39
46659691--46659742	15	3.6	15	80	12	56	53	1	0	44	1.11
46659575--46659867	120	2.4	121	95	1	518	50	5	2	42	1.37
46659808--46660090	91	3.0	96	84	8	286	48	3	3	45	1.35
46659883--46660090	91	2.3	90	89	4	317	46	4	3	46	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46659908--46660050	44	3.2	43	66	16	110	47	3	2	46	1.31
46659933--46660071	47	3.0	47	67	17	128	48	4	2	44	1.34
46670360--46670394	18	1.9	18	88	11	54	48	0	0	51	1.00
46671987--46672059	32	2.4	29	80	8	76	46	1	2	49	1.24
46674813--46674839	12	2.2	12	100	0	54	85	7	0	7	0.75
46677539--46677568	13	2.3	13	100	0	60	46	6	6	40	1.56
46678216--46678306	36	2.5	36	80	8	96	51	4	4	39	1.42
46691197--46691284	30	3.0	28	76	17	79	61	2	4	31	1.28
46691206--46691284	30	2.6	31	80	11	83	60	2	3	32	1.28
46701248--46701278	9	3.4	9	90	0	53	25	12	22	38	1.90
46701332--46701368	9	4.1	9	92	0	65	45	13	10	29	1.77
46702396--46702421	5	5.2	5	100	0	52	19	19	19	42	1.90
46710022--46710078	16	3.6	16	69	9	53	21	0	21	57	1.40
46710528--46710557	15	1.9	16	93	6	53	13	0	30	56	1.37
46711709--46711812	45	2.3	45	84	3	145	29	22	6	41	1.79
46720821--46721370	272	2.0	275	87	3	788	30	22	24	22	1.99
46726345--46726431	25	3.5	25	82	1	113	19	26	24	29	1.98
46729664--46729712	20	2.5	20	80	9	57	46	0	6	46	1.27
46731782--46731867	43	2.0	43	93	4	147	24	23	24	27	2.00
46732377--46732427	24	2.1	24	92	7	86	35	19	27	17	1.94
46732472--46732526	26	2.1	27	90	6	87	40	20	23	16	1.91
46735872--46735945	36	2.1	36	86	0	103	24	13	22	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46735961--46735995	16	2.2	16	89	0	52	62	0	17	20	1.32
46735968--46736005	16	2.4	16	82	4	51	65	0	15	18	1.27
46744986--46745016	14	2.2	14	94	0	53	45	16	12	25	1.83
46747003--46747036	2	17.5	2	87	6	52	50	0	0	50	1.00
46753253--46753281	5	5.8	5	100	0	58	20	37	0	41	1.53
46755509--46755573	22	2.9	23	70	6	71	58	9	1	30	1.39
46755849--46755900	25	2.0	28	88	11	83	34	11	0	53	1.37
46756108--46756177	19	3.7	19	82	3	97	37	10	0	52	1.35
46756113--46756183	37	1.9	37	100	0	142	39	11	0	49	1.39
46756378--46756432	18	2.9	19	78	5	76	38	12	0	49	1.41

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198