genome.fa.s5.2.7.7.80.10.50.1000.126.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  126  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)
38709945--38709972	5	5.6	5	100	0	56	64	0	0	35	0.94
38710133--38710189	10	5.7	10	82	10	64	1	19	0	78	0.83
38710132--38710188	21	2.8	21	85	12	75	1	21	0	77	0.86
38710210--38710260	24	2.2	25	86	10	72	3	29	45	21	1.70
38710291--38710360	23	3.0	23	84	10	88	0	21	7	71	1.09
38710295--38710351	4	14.5	4	76	20	50	0	21	5	73	1.02
38710329--38710358	15	1.9	16	93	6	53	0	13	10	76	1.01
38710291--38710351	24	2.6	25	89	7	92	0	22	6	70	1.10
38710461--38710520	14	4.6	13	78	12	52	0	23	0	76	0.78
38710468--38710526	6	9.3	6	80	10	64	0	25	0	74	0.82
38710467--38710511	14	3.4	14	84	9	58	0	24	0	75	0.80
38710642--38710689	12	3.7	13	78	15	55	0	10	14	75	1.06
38710656--38710694	14	2.8	14	80	0	51	0	7	15	76	0.99
38711011--38711190	30	6.1	29	76	10	145	37	6	23	32	1.80
38711053--38711208	30	5.2	29	83	6	154	37	5	24	32	1.79
38712346--38712392	24	2.0	24	86	0	67	53	23	10	12	1.70
38716951--38717026	37	2.1	37	89	0	116	19	14	22	43	1.87
38718796--38718899	41	2.6	41	89	1	147	33	25	16	25	1.96
38723829--38723874	22	2.1	22	84	8	58	54	17	0	28	1.43
38726030--38726061	15	2.1	15	94	0	55	34	21	0	43	1.53
38726328--38726358	9	3.3	9	95	4	53	58	0	0	41	0.98
38726772--38726823	25	2.0	26	82	10	63	42	1	5	50	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38728452--38728533	36	2.3	35	87	8	114	39	3	4	52	1.41
38728516--38728568	20	2.8	19	81	18	67	41	1	1	54	1.22
38735645--38735689	20	2.2	20	84	7	56	33	17	2	46	1.61
38738486--38738533	14	3.1	15	79	14	53	60	6	2	31	1.33
38738474--38738524	18	2.7	18	77	17	59	58	5	3	31	1.40
38740725--38740765	19	2.2	19	86	8	57	31	9	4	53	1.55
38744459--38744497	19	2.1	19	95	0	69	23	0	5	71	1.05
38752225--38752300	9	8.4	9	82	0	80	46	18	6	28	1.74
38753627--38753678	26	2.0	26	96	0	95	40	3	21	34	1.71
38760425--38760467	22	2.0	22	81	9	52	44	2	0	53	1.13
38765232--38765275	20	2.2	20	87	0	61	0	52	0	47	1.00
38765233--38765278	24	1.9	24	90	0	74	0	52	0	47	1.00
38788430--38788580	42	3.6	42	80	3	135	44	16	23	15	1.86
38788457--38788510	21	2.6	21	72	0	54	38	18	27	14	1.90
38790388--38790458	25	3.0	24	81	8	65	38	19	22	19	1.94
38790738--38790779	22	2.0	21	90	4	66	47	16	0	35	1.47
38790773--38790811	19	2.1	19	100	0	78	41	5	5	48	1.47
38793114--38793153	21	1.9	21	89	0	62	22	25	12	40	1.89
38799294--38799342	21	2.3	21	85	0	71	16	20	14	48	1.80
38811158--38811217	30	2.0	31	86	3	86	20	36	0	43	1.52
38815025--38815066	16	2.6	16	81	11	50	40	2	0	57	1.12
38815213--38815253	18	2.3	18	83	12	57	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38815241--38815291	26	1.9	27	92	4	86	39	1	3	54	1.30
38815414--38815455	21	2.0	21	81	9	50	59	0	2	38	1.10
38815492--38815545	18	3.0	17	84	12	72	51	0	1	46	1.11
38818482--38818521	5	8.2	5	86	5	55	77	2	2	17	0.99
38818485--38818515	9	3.3	9	91	8	53	77	0	3	19	0.90
38818485--38818521	19	1.9	19	88	0	56	78	2	2	16	0.98
38818712--38819245	74	7.0	73	79	9	473	34	22	16	26	1.95
38819016--38819046	14	2.2	14	100	0	62	16	0	22	61	1.34
38818760--38819245	155	3.2	151	78	8	511	34	22	16	26	1.95
38819462--38820038	77	7.7	75	91	6	924	39	18	14	27	1.90
38819462--38820008	221	2.5	217	92	5	902	38	19	14	27	1.91
38820895--38820925	13	2.4	13	94	0	53	0	3	9	87	0.66
38820906--38820941	16	2.3	16	95	4	65	0	0	11	88	0.50
38824898--38824922	4	6.2	4	100	0	50	52	0	24	24	1.48
38826601--38826763	18	9.2	18	74	6	127	49	10	11	28	1.71
38826648--38826763	35	3.3	35	78	8	128	50	11	10	28	1.71
38826649--38826753	53	2.0	52	79	7	63	50	11	11	26	1.72
38827264--38827303	5	8.2	5	86	5	55	77	2	2	17	0.99
38827267--38827297	9	3.3	9	91	8	53	77	0	3	19	0.90
38827267--38827303	19	1.9	19	88	0	56	78	2	2	16	0.98
38828476--38828520	24	1.9	23	81	4	54	60	6	13	20	1.55
38839484--38839663	51	3.5	51	77	8	147	23	16	27	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38839791--38839863	37	1.9	37	84	13	96	42	1	23	32	1.63
38844384--38844409	4	6.5	4	100	0	52	50	26	0	23	1.50
38849120--38849170	25	2.0	25	96	0	93	25	25	17	31	1.97
38849078--38849211	67	2.0	67	88	2	198	26	25	20	28	1.99
38849149--38849301	44	3.6	43	80	9	134	21	27	18	32	1.97
38849145--38849284	44	3.2	41	82	9	147	23	27	18	30	1.98
38849700--38849750	21	2.4	21	90	6	77	1	45	17	35	1.60
38849636--38849794	87	1.8	86	86	1	219	13	28	16	41	1.86
38852561--38852607	12	4.2	12	76	15	55	31	2	19	46	1.61
38852554--38852609	21	2.7	21	91	0	85	32	1	19	46	1.61
38852514--38852710	91	2.2	88	78	14	204	36	1	16	45	1.56
38852746--38852821	39	1.9	40	94	2	136	39	9	15	35	1.80
38852753--38852817	22	3.2	21	64	28	50	41	10	15	32	1.81
38852839--38852889	9	5.7	9	82	13	52	31	0	17	50	1.46
38852817--38852904	27	3.2	28	82	10	85	29	0	21	48	1.50
38852837--38852898	18	3.4	18	77	14	74	29	0	20	50	1.49
38852857--38852904	9	5.3	9	82	9	62	27	0	25	47	1.52
38855865--38855971	7	15.0	7	76	14	76	37	42	0	20	1.53
38855865--38855997	43	3.1	42	75	12	126	37	40	0	21	1.54
38855868--38855997	57	2.3	56	81	7	138	36	41	0	21	1.53
38855867--38855997	28	4.6	28	77	10	115	37	41	0	21	1.53
38856136--38856218	15	5.7	15	69	8	55	33	43	0	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38856118--38856216	35	2.8	35	80	4	110	35	43	1	20	1.59
38856140--38856221	21	3.8	22	71	12	71	37	40	0	21	1.54
38856211--38856287	41	1.9	41	86	5	113	49	19	3	27	1.66
38856869--38857196	114	2.9	113	77	5	313	29	21	16	33	1.95
38858025--38858061	19	2.0	19	85	15	51	43	0	0	56	0.99
38860877--38860901	12	2.1	12	100	0	50	48	0	0	52	1.00
38866155--38866212	27	2.1	27	83	0	71	34	20	6	37	1.80
38867453--38867503	26	2.0	26	92	7	86	41	7	15	35	1.76
38876610--38876634	7	3.6	7	100	0	50	28	0	12	60	1.32
38877285--38877324	18	2.2	18	95	0	71	22	30	7	40	1.81
38877591--38877889	54	5.3	53	65	19	174	41	8	6	44	1.60
38877645--38877950	61	5.2	61	66	16	234	40	8	8	42	1.66
38877532--38878002	115	4.1	115	96	0	845	39	9	7	44	1.63
38887815--38887866	18	2.9	18	91	0	86	38	13	7	40	1.73
38897102--38897152	13	3.8	13	75	14	50	39	21	5	33	1.78
38899036--38899421	193	2.0	193	93	0	664	26	24	16	32	1.96
38901798--38901837	17	2.2	17	86	8	53	52	12	5	30	1.60
38911465--38911535	3	23.7	3	100	0	142	32	0	0	67	0.91
38917455--38917485	2	15.5	2	100	0	62	51	0	0	48	1.00
38937777--38937817	3	13.7	3	100	0	82	0	34	0	65	0.93
38940291--38940315	11	2.3	11	100	0	50	64	8	20	8	1.46
38942376--38942419	19	2.3	19	88	4	61	50	4	2	43	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38942340--38942419	39	2.1	39	80	4	90	55	3	1	40	1.26
38942613--38942787	9	19.3	9	70	18	62	33	2	2	61	1.21
38942613--38942685	19	3.8	19	73	12	60	36	1	1	60	1.14
38942613--38942703	10	9.4	10	74	11	73	34	2	1	62	1.14
38942613--38942799	28	6.9	27	69	18	111	32	2	2	63	1.18
38942596--38942719	57	2.2	56	84	9	155	31	4	2	61	1.30
38942690--38942759	33	2.1	34	81	7	81	27	2	1	68	1.12
38952140--38952186	16	2.9	16	96	0	85	25	29	0	44	1.54
38953182--38953227	15	3.1	15	81	9	58	52	0	0	47	1.00
38953348--38953410	32	2.0	32	87	0	90	44	6	6	42	1.55

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