genome.fa.s5.2.7.7.80.10.50.1000.32.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   199   200   201   202   203   204   205   206   207   208   

This is table  32  of  208  ( 24913 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)
9159486--9159596	52	2.1	51	80	12	127	43	7	12	36	1.70
9159576--9159626	19	2.5	21	81	9	61	37	9	7	45	1.67
9159647--9159690	17	2.5	17	82	13	54	45	11	13	29	1.79
9159647--9159689	18	2.4	18	85	11	54	46	9	13	30	1.75
9159784--9159826	22	2.0	22	90	4	70	46	9	9	34	1.68
9160268--9160332	10	6.4	10	72	12	53	3	21	1	73	1.05
9160414--9160456	14	3.0	14	83	10	52	0	37	0	62	0.95
9160424--9160469	18	2.7	17	77	16	51	0	39	0	60	0.97
9161658--9161707	19	2.6	19	87	9	66	36	0	24	40	1.55
9166922--9166954	14	2.3	15	89	5	50	57	18	3	21	1.53
9178086--9178137	7	7.3	7	76	4	50	50	30	0	19	1.48
9178086--9178137	14	3.6	14	85	14	63	50	30	0	19	1.48
9182139--9182204	32	2.1	32	83	10	84	43	10	12	33	1.76
9183703--9183766	30	2.1	30	91	0	101	23	29	31	15	1.95
9184755--9184795	21	2.0	21	90	0	64	39	19	29	12	1.88
9184735--9184871	21	6.5	21	65	6	62	44	16	22	16	1.86
9188509--9188557	26	1.9	26	87	4	73	20	22	20	36	1.95
9188543--9188617	25	3.1	24	76	12	66	22	21	21	34	1.97
9198177--9198214	18	2.1	18	85	9	51	15	15	7	60	1.57
9198224--9198326	12	8.5	11	69	19	55	27	13	8	50	1.71
9207575--9207606	16	2.0	16	93	0	55	46	6	28	18	1.73
9207497--9207684	94	2.0	94	88	0	277	36	7	22	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9207616--9207981	78	4.9	70	83	7	272	33	8	21	35	1.85
9207420--9207752	162	2.0	164	84	7	440	34	8	23	33	1.85
9207684--9208007	78	4.2	78	89	1	472	33	8	21	36	1.85
9211930--9211963	17	1.9	18	88	5	52	35	0	2	61	1.11
9212498--9212531	17	1.9	17	88	5	50	0	17	2	79	0.86
9217034--9217097	31	2.1	31	85	5	85	31	17	12	39	1.87
9222794--9222834	14	3.0	14	96	3	75	80	0	19	0	0.71
9225898--9225928	2	15.5	2	93	0	53	45	0	3	51	1.17
9227344--9227770	78	5.5	78	88	0	613	35	21	8	34	1.83
9227344--9227957	156	3.8	156	82	7	737	35	22	8	34	1.84
9227755--9227786	16	2.0	16	93	0	55	18	28	6	46	1.73
9227677--9227864	94	2.0	94	91	0	304	32	22	7	36	1.84
9227599--9227942	172	2.0	172	90	1	537	33	22	8	35	1.84
9227771--9227957	78	2.4	78	88	5	272	33	23	8	34	1.85
9230978--9231004	6	4.5	6	100	0	54	18	33	33	14	1.92
9232428--9232664	105	2.3	104	83	5	291	24	21	30	23	1.99
9232593--9232699	42	2.5	42	81	3	126	21	23	36	18	1.95
9233204--9233264	24	2.7	22	78	9	68	26	8	18	47	1.76
9236468--9236501	18	1.9	17	88	5	50	44	20	17	17	1.87
9248021--9248050	8	3.8	8	100	0	60	10	23	13	53	1.69
9248018--9248065	13	3.5	13	81	15	60	8	22	14	54	1.67
9252921--9252946	4	6.5	4	100	0	52	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9252900--9252968	20	3.3	21	74	18	72	24	2	2	69	1.16
9255168--9255215	25	2.0	25	88	8	73	43	0	2	54	1.12
9255321--9255369	20	2.5	20	93	0	80	61	4	0	34	1.15
9261498--9261540	10	4.3	10	81	0	50	48	20	2	27	1.62
9264886--9264926	20	2.0	20	100	0	82	39	14	19	26	1.90
9276582--9276626	22	2.0	22	86	4	63	37	17	6	37	1.76
9276598--9276641	19	2.5	17	86	13	70	31	18	9	40	1.81
9277064--9277476	131	3.1	132	86	1	560	25	25	19	28	1.99
9277467--9277673	89	2.3	89	83	0	252	26	22	23	27	1.99
9277637--9278438	45	17.9	46	73	9	264	27	21	18	32	1.97
9277673--9277944	89	2.9	94	78	10	247	29	19	18	33	1.95
9277914--9278435	89	5.9	88	77	5	390	27	22	17	31	1.97
9277660--9278304	178	3.6	178	82	5	644	27	20	18	32	1.96
9278008--9278444	223	2.0	223	89	1	671	26	23	18	31	1.97
9278767--9278842	24	3.2	24	84	0	107	31	19	11	36	1.88
9285791--9285835	22	2.0	22	86	4	63	37	17	6	37	1.76
9287567--9287618	25	2.0	26	88	3	79	32	17	13	36	1.89
9288705--9288745	17	2.4	17	100	0	82	19	36	21	21	1.95
9290046--9290280	74	3.2	74	74	6	255	31	24	23	20	1.98
9290086--9290276	35	5.4	35	74	6	159	31	25	22	20	1.98
9289973--9290280	143	2.2	143	86	0	436	30	24	24	21	1.99
9293138--9293162	11	2.3	11	100	0	50	28	24	16	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9294776--9295520	372	2.0	371	82	5	916	28	11	25	34	1.91
9296363--9296422	20	3.2	19	86	11	72	15	20	43	21	1.88
9296389--9296423	17	2.0	18	94	5	63	11	22	42	22	1.85
9296682--9296773	27	3.4	27	75	8	89	42	19	16	21	1.89
9296873--9297094	109	2.0	109	93	0	381	20	17	30	31	1.95
9297087--9297141	26	2.1	26	96	0	101	20	21	23	34	1.97
9297246--9297388	28	5.1	28	88	3	225	22	23	23	31	1.98
9299034--9299325	107	2.7	108	84	3	349	41	20	18	19	1.90
9299021--9299325	54	5.7	54	86	3	355	41	19	18	20	1.90
9299021--9299325	27	11.4	27	83	3	294	41	19	18	20	1.90
9302587--9302631	14	3.1	14	87	9	56	13	6	2	77	1.05
9303279--9303414	62	2.2	61	80	3	148	21	24	30	24	1.99
9304590--9304659	28	2.5	28	90	4	106	55	14	10	20	1.67
9306036--9306133	29	3.3	30	75	16	82	62	1	3	33	1.18
9306034--9306133	31	3.4	27	73	17	85	63	1	3	33	1.17
9306206--9306239	17	2.0	17	88	0	50	70	2	17	8	1.25
9311038--9311100	25	2.5	25	86	0	99	26	23	22	26	2.00
9316353--9316401	18	2.6	19	78	18	57	73	2	2	22	1.04
9319625--9319652	7	4.0	7	100	0	56	42	0	14	42	1.45
9321870--9321903	16	2.2	16	89	5	52	32	5	0	61	1.20
9322283--9322310	2	14.0	2	100	0	56	50	0	0	50	1.00
9326583--9326645	26	2.3	28	89	5	94	52	3	25	19	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9332191--9332247	18	3.4	17	80	7	62	35	5	1	57	1.31
9332971--9333287	109	2.9	109	92	1	514	30	16	19	33	1.94
9337416--9337462	9	4.8	9	85	15	58	82	0	17	0	0.66
9337416--9337463	15	3.1	16	80	17	57	81	0	18	0	0.70
9337416--9337462	10	4.7	10	84	10	60	82	0	17	0	0.66
9338259--9338287	15	2.0	15	93	6	51	82	0	3	13	0.79
9339434--9340387	88	10.8	88	92	0	1507	27	23	24	24	2.00
9340378--9340658	132	2.1	132	91	0	463	30	18	24	25	1.98
9342153--9342187	2	17.5	2	93	0	61	48	0	2	48	1.16
9342442--9342486	18	2.6	17	80	13	56	33	6	0	60	1.23
9343225--9343524	109	2.8	109	93	2	498	31	16	20	32	1.94
9350485--9350537	18	3.0	17	91	5	79	39	1	1	56	1.21
9350663--9350754	44	2.1	45	95	2	168	36	29	4	29	1.77
9350671--9350768	45	2.2	44	89	5	144	39	30	6	23	1.79
9351941--9352558	51	12.5	51	83	7	702	15	6	47	30	1.70
9351938--9352558	153	4.2	153	83	7	812	15	6	47	30	1.70
9352090--9352617	237	2.2	238	90	1	808	15	6	46	31	1.70
9352190--9352674	237	2.0	237	84	3	627	15	6	48	29	1.70
9360457--9360744	145	2.0	145	97	0	540	29	21	20	29	1.98
9361031--9361055	13	1.9	13	100	0	50	32	16	20	32	1.94
9361948--9361975	3	9.3	3	100	0	56	64	0	0	35	0.94
9363050--9363090	17	2.4	17	91	0	64	31	34	19	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9368803--9368877	20	3.8	20	74	13	64	41	22	24	12	1.87
9370225--9370275	26	2.0	24	88	7	75	27	11	5	54	1.59
9372103--9372221	27	4.4	26	80	9	132	44	18	16	20	1.87
9372103--9372221	54	2.2	53	85	4	157	44	18	16	20	1.87
9372247--9372303	25	2.2	25	84	9	71	21	12	21	45	1.83
9373162--9373211	25	2.0	25	100	0	100	40	8	16	36	1.77
9374437--9374481	15	3.0	15	77	9	56	20	13	0	66	1.24
9374871--9374935	31	2.1	32	82	2	78	40	1	1	56	1.18
9378624--9378677	29	2.0	29	82	13	71	44	5	7	42	1.55
9380958--9381647	87	7.4	89	76	14	511	14	6	48	30	1.69

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   199   200   201   202   203   204   205   206   207   208