genome.fa.s11.2.7.7.80.10.50.1000.52.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  52  of  210  ( 25152 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)
15926616--15926737	41	3.0	41	96	1	217	30	33	18	17	1.94
15926514--15926711	110	1.8	109	89	1	315	28	29	22	19	1.98
15926801--15926892	38	2.3	41	83	7	111	19	23	25	31	1.98
15929763--15929799	14	2.6	15	83	12	51	10	8	0	81	0.89
15932331--15932429	11	9.2	11	68	16	55	66	7	4	22	1.33
15944580--15944614	18	2.0	17	88	5	52	54	0	0	45	0.99
15944467--15944782	156	2.0	157	95	0	562	43	3	5	47	1.41
15944716--15944757	15	2.7	16	82	14	52	52	2	0	45	1.13
15944725--15944766	15	2.9	15	82	10	52	52	0	0	47	1.00
15944751--15944938	61	3.1	60	68	17	181	48	5	2	43	1.39
15944835--15944886	15	3.6	15	80	12	56	53	1	0	44	1.11
15944719--15945022	120	2.5	120	93	2	504	50	4	2	42	1.35
15947480--15947514	6	5.8	6	96	0	61	34	0	65	0	0.93
15954268--15954344	37	2.1	37	85	0	100	58	2	6	32	1.37
15955561--15955740	38	4.7	38	89	0	252	32	22	13	31	1.93
15955615--15955676	19	3.3	18	68	18	54	35	22	12	29	1.91
15959826--15959885	28	2.1	27	82	8	75	66	3	1	28	1.17
15960729--15960762	6	5.7	6	100	0	68	50	35	0	14	1.44
15965213--15965237	4	6.2	4	100	0	50	48	0	0	52	1.00
15968068--15968105	14	2.7	14	100	0	76	13	5	50	31	1.63
15971122--15971232	19	5.8	19	88	0	168	36	9	16	37	1.82
15972267--15972461	98	2.0	98	91	0	318	27	10	25	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15977466--15977522	24	2.3	25	79	11	64	29	12	1	56	1.46
15978234--15978290	6	10.0	6	85	11	84	84	14	1	0	0.71
15978234--15978290	17	3.3	18	90	7	84	84	14	1	0	0.71
15979729--15980351	44	14.2	44	64	15	171	30	21	24	24	1.99
15979655--15980332	132	5.1	132	93	0	1178	30	20	24	23	1.98
15980356--15981013	132	5.0	132	96	0	1147	28	18	24	28	1.98
15981003--15981311	44	7.1	45	74	13	229	28	21	24	25	1.99
15981018--15981308	128	2.2	128	78	12	292	28	21	24	25	1.99
15980358--15981162	396	2.0	396	84	5	975	28	19	24	27	1.98
15981013--15981306	89	3.4	84	77	10	238	28	21	24	25	1.99
15981484--15981594	19	5.8	19	88	0	168	36	9	16	37	1.82
15982749--15982788	3	13.3	3	94	0	71	35	0	0	65	0.93
15983036--15983230	98	2.0	98	90	2	311	27	10	25	36	1.88
15990232--15990350	63	1.9	63	94	3	213	33	25	12	28	1.92
15990372--15990415	21	2.1	21	82	0	52	29	27	15	27	1.96
15990480--15990531	23	2.4	21	78	12	59	32	30	9	26	1.89
15990494--15990537	23	1.9	23	95	0	79	31	27	9	31	1.88
15994752--15994808	30	1.9	30	85	7	80	35	21	14	29	1.92
15996262--15996296	3	11.7	3	93	0	61	62	0	2	34	1.10
15996262--15996300	12	3.2	12	96	0	69	61	0	5	33	1.18
15996844--15996944	19	5.0	22	84	7	67	38	17	6	36	1.77
15996867--15996958	19	4.8	19	89	0	139	36	17	8	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15996844--15996958	38	2.9	38	88	5	158	38	17	7	36	1.79
15997470--15997973	44	11.6	45	70	13	236	27	21	20	30	1.98
15998339--15998439	44	2.3	44	86	6	143	26	29	16	26	1.97
15998339--15998455	44	2.7	44	80	7	114	27	29	18	23	1.98
15998430--15998597	88	1.9	88	93	0	291	22	26	26	25	2.00
15999929--15999961	14	2.3	15	89	5	50	27	33	12	27	1.92
16000746--16000806	26	2.3	26	83	5	70	57	4	14	22	1.57
16005120--16005406	87	3.3	86	79	9	296	34	11	11	41	1.78
16005120--16005514	174	2.3	169	78	9	368	34	11	11	43	1.77
16005397--16005585	85	2.2	85	79	5	206	31	12	12	43	1.79
16013792--16013904	30	3.8	30	89	0	172	33	45	0	21	1.52
16016079--16016231	78	2.0	78	84	0	198	30	22	15	32	1.95
16029950--16030113	85	1.9	85	85	4	224	26	12	20	40	1.87
16031954--16031984	16	1.9	16	100	0	62	32	0	38	29	1.57
16034425--16034495	22	3.2	22	93	0	115	30	16	26	25	1.97
16035505--16035537	17	2.0	17	88	5	50	69	0	27	3	1.03
16037502--16037542	21	2.0	22	90	9	68	48	9	9	31	1.69
16038519--16038613	50	1.9	50	97	0	181	37	12	10	38	1.78
16043346--16043464	49	2.5	48	91	1	193	16	16	37	28	1.91
16044301--16044342	21	2.0	21	90	0	66	16	7	23	52	1.68
16044667--16044699	9	3.7	9	95	0	57	36	12	0	51	1.39
16047176--16047206	15	2.1	15	100	0	62	38	6	32	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16049601--16049630	14	2.1	15	93	6	53	40	6	30	23	1.80
16050228--16050543	43	7.3	43	88	2	429	31	32	17	18	1.94
16050847--16050934	43	2.1	42	85	6	115	45	10	7	36	1.67
16054468--16054497	15	2.0	15	100	0	60	26	46	0	26	1.53
16054957--16055313	43	8.3	43	87	3	459	29	32	17	19	1.95
16055462--16055559	47	2.1	47	100	0	196	47	4	6	41	1.47
16056780--16056825	3	15.3	3	100	0	92	34	32	0	32	1.58
16059955--16060036	7	11.6	7	80	2	92	51	30	1	17	1.53
16060289--16060696	41	10.0	40	90	2	564	29	33	20	15	1.94
16060323--16060696	203	1.8	204	92	1	635	29	34	20	15	1.93
16060757--16060866	40	2.8	40	77	1	123	21	23	18	36	1.95
16061316--16061679	41	8.9	41	82	4	421	30	26	20	22	1.98
16061745--16061847	40	2.6	40	78	4	102	17	24	26	32	1.97
16072955--16073010	27	2.0	28	93	3	96	21	19	16	42	1.89
16075123--16075270	27	5.5	27	83	7	176	40	17	22	19	1.91
16075123--16075268	54	2.7	53	87	1	202	41	17	21	19	1.91
16084344--16084379	19	2.0	18	89	10	56	33	5	5	55	1.46
16084970--16085065	28	3.4	28	88	2	149	32	22	22	21	1.98
16085391--16085639	27	9.3	26	83	7	284	15	18	21	44	1.86
16085391--16085639	54	4.6	54	86	3	342	15	18	21	44	1.86
16085392--16085639	81	3.1	80	83	5	329	15	18	20	45	1.86
16087656--16087695	15	2.7	15	85	11	55	12	50	0	37	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16090266--16090368	50	2.1	50	100	0	206	40	11	24	23	1.87
16098511--16098550	15	2.7	15	85	11	55	12	50	0	37	1.41
16105527--16105555	12	2.3	13	94	5	51	13	0	10	75	1.04
16107255--16107313	24	2.4	25	78	18	61	42	27	11	18	1.85
16122458--16122531	29	2.6	29	88	0	112	16	14	29	39	1.88
16124646--16124687	18	2.5	17	82	17	52	0	14	7	78	0.95
16124660--16124703	20	2.3	19	80	4	52	2	15	4	77	1.04
16125281--16125318	16	2.4	16	86	4	51	26	2	5	65	1.27
16125282--16125345	3	21.7	3	73	9	51	23	3	4	68	1.23
16125288--16125345	22	2.7	21	83	5	71	24	3	3	68	1.20
16125696--16125726	2	15.5	2	100	0	62	48	0	0	51	1.00
16125902--16125943	5	8.4	5	100	0	84	19	0	0	80	0.70
16131482--16131526	13	3.2	14	81	9	56	64	0	24	11	1.26
16132764--16133746	88	11.2	88	87	1	1310	27	24	25	23	2.00
16132781--16133710	44	21.2	43	63	15	242	26	24	25	24	2.00
16134706--16134747	18	2.5	17	85	11	59	0	14	4	80	0.86
16135339--16135408	9	7.8	9	81	7	54	22	2	4	70	1.19
16135338--16135375	16	2.4	16	86	4	51	26	2	5	65	1.27
16135339--16135387	3	16.0	3	82	4	62	28	2	4	65	1.22
16165772--16166234	232	2.0	232	95	0	836	32	13	14	39	1.85
16170270--16170299	1	30.0	1	100	0	60	0	0	0	100	0.00
16174324--16174356	17	2.0	17	88	5	50	45	9	12	33	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16177280--16177329	17	2.9	17	84	3	55	34	0	0	66	0.92
16177282--16177329	16	2.9	16	81	3	51	33	0	0	66	0.92
16184504--16184632	54	2.4	54	92	0	213	26	19	13	40	1.89
16184504--16184661	54	2.9	54	87	0	163	25	20	13	39	1.90
16185076--16185122	24	2.0	24	86	0	67	29	14	12	42	1.83
16185935--16186252	125	2.5	125	94	0	564	30	14	21	33	1.94
16189379--16189403	10	2.5	10	100	0	50	48	0	8	44	1.32
16189386--16189529	56	2.5	57	75	12	152	46	7	9	36	1.65
16189499--16189555	26	2.2	26	100	0	114	59	7	7	26	1.49
16189553--16189816	29	9.3	29	86	3	376	25	0	23	50	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   
          209   210