genome.fa.s11.2.7.7.80.10.50.1000.144.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  144  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)
43873264--43873306	18	2.2	20	88	8	63	81	0	16	2	0.79
43878984--43879025	6	7.0	6	100	0	84	33	0	0	66	0.92
43887268--43887321	27	2.0	28	88	3	83	25	11	27	35	1.90
43887951--43887986	18	1.9	19	88	5	56	33	2	0	63	1.08
43887934--43887983	25	2.0	26	84	11	68	36	2	4	58	1.29
43888186--43888519	43	7.8	43	87	1	449	27	29	17	25	1.97
43888186--43888533	128	2.7	129	87	1	477	28	30	16	24	1.97
43889728--43889752	5	5.0	5	100	0	50	80	0	0	20	0.72
43892524--43892561	7	5.4	7	90	0	58	34	47	0	18	1.49
43892437--43892676	133	1.8	132	87	4	358	41	29	1	27	1.66
43892700--43892730	7	4.4	7	100	0	62	32	38	0	29	1.57
43893138--43893450	41	7.6	41	82	4	355	29	24	20	25	1.99
43895991--43896024	6	5.3	6	86	13	50	64	2	2	29	1.22
43902826--43902863	16	2.4	16	86	4	60	36	0	39	23	1.55
43904770--43904890	63	1.9	62	81	5	145	25	28	23	23	2.00
43905386--43905432	14	3.6	14	77	16	64	74	2	17	6	1.12
43905807--43905853	4	11.8	4	100	0	94	51	0	25	23	1.49
43906429--43906486	28	2.1	28	100	0	116	31	3	22	43	1.70
43906437--43906494	28	2.2	26	88	11	84	31	5	18	44	1.72
43911130--43911280	72	2.1	71	96	2	275	34	23	8	33	1.85
43912321--43912363	10	4.2	10	80	13	52	72	0	6	20	1.08
43918714--43918799	44	2.0	44	95	0	154	27	24	26	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43944150--43944175	1	26.0	1	100	0	52	0	0	0	100	0.00
43944337--43944380	2	22.0	2	100	0	88	50	0	0	50	1.00
43956682--43956743	18	3.4	18	88	0	79	27	11	25	35	1.90
43956947--43956989	18	2.4	18	80	7	52	46	2	0	51	1.13
43962689--43962731	13	3.4	12	80	6	50	53	0	2	44	1.13
43963741--43963836	40	2.4	41	84	5	124	29	39	11	19	1.87
43963846--43963945	39	2.6	39	80	0	110	30	38	12	20	1.88
43973572--43973634	30	2.1	30	82	11	76	30	14	7	47	1.72
43974352--43974381	3	10.3	3	92	7	53	0	33	0	66	0.92
43974355--43974381	14	1.9	14	100	0	54	0	33	0	66	0.92
43974337--43974381	17	2.6	17	89	0	63	0	40	0	60	0.97
43974649--43974699	23	2.3	21	75	21	50	52	3	0	43	1.19
43986671--43986823	22	7.0	22	90	0	225	26	26	14	32	1.94
43989439--43989467	12	2.3	13	94	5	51	48	17	13	20	1.81
43993047--43993107	25	2.4	25	78	5	61	39	4	3	52	1.39
43997297--43997875	114	5.1	112	75	10	428	32	15	21	29	1.95
43997297--43997893	227	2.6	226	89	4	864	33	16	21	28	1.95
43997810--43997949	74	1.9	75	88	4	212	30	17	22	29	1.97
43997675--43998075	188	2.1	188	91	0	649	31	15	22	30	1.95
43998536--43998579	7	6.6	7	84	10	65	15	0	50	34	1.45
43998529--43998568	21	1.9	21	94	0	71	17	0	47	35	1.48
43998431--43998541	45	2.5	45	95	2	197	26	1	29	42	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43998541--43998579	12	3.1	12	92	7	60	15	0	51	33	1.44
43998541--43998593	26	2.0	26	82	7	63	20	0	45	33	1.52
43998678--43998760	7	11.9	7	79	5	87	19	1	48	31	1.57
43998709--43998768	14	4.4	14	87	10	56	18	0	48	33	1.48
43998727--43998915	96	2.0	96	80	10	217	28	1	28	42	1.65
43998986--43999012	14	1.9	14	100	0	54	48	0	7	44	1.31
43999014--43999054	20	2.0	20	85	0	55	60	4	7	26	1.43
43999062--43999094	8	4.1	8	88	11	50	84	3	0	12	0.72
43999062--43999094	15	2.1	16	94	5	59	84	3	0	12	0.72
43999562--43999972	198	2.1	197	90	1	635	29	16	19	34	1.94
44000472--44000496	10	2.5	10	100	0	50	48	12	8	32	1.69
44002658--44002709	13	4.0	13	92	0	77	46	9	1	42	1.47
44002677--44002812	53	2.6	53	85	0	200	38	11	5	45	1.62
44002957--44003197	9	27.8	9	68	12	130	45	20	3	31	1.67
44003107--44003165	24	2.4	24	83	11	75	47	18	3	30	1.65
44009895--44009970	27	2.8	27	75	0	80	19	27	17	35	1.94
44016757--44017294	285	1.9	286	92	1	918	36	11	12	38	1.81
44021144--44021187	21	2.1	21	82	0	52	18	29	27	25	1.98
44029071--44029159	3	29.0	3	79	13	92	33	1	2	62	1.15
44034714--44034831	37	3.1	37	67	19	89	30	15	2	51	1.56
44041884--44041932	22	2.3	20	77	16	53	48	2	2	46	1.25
44041896--44041954	25	2.5	22	78	19	66	50	1	0	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44042455--44042490	18	2.0	18	89	10	56	22	19	2	55	1.56
44043042--44043091	26	1.9	26	88	8	75	44	0	28	28	1.55
44043202--44043301	31	3.3	31	64	23	84	52	4	10	34	1.54
44043197--44043325	61	2.1	61	98	0	249	50	4	7	37	1.52
44044365--44044400	16	2.2	16	100	0	72	25	0	36	38	1.56
44044582--44044807	125	1.8	125	93	0	389	47	5	2	44	1.39
44044741--44044782	15	2.7	16	82	14	52	52	2	0	45	1.13
44044750--44044791	15	2.9	15	82	10	52	52	0	0	47	1.00
44044594--44045036	120	3.6	122	84	6	449	48	5	2	43	1.40
44044776--44044963	61	3.1	61	68	14	190	48	5	2	43	1.39
44044739--44045036	120	2.5	121	92	4	487	49	4	2	43	1.36
44044860--44044911	15	3.6	15	80	12	56	53	1	0	44	1.11
44044779--44044962	59	3.1	59	66	20	164	48	5	2	42	1.39
44045092--44045133	18	2.3	18	84	8	50	47	4	0	47	1.23
44045077--44045124	26	1.9	25	84	16	64	52	2	0	45	1.12
44049654--44049696	17	2.5	17	96	0	77	48	18	11	20	1.79
44050160--44050198	20	2.0	20	84	0	51	33	5	17	43	1.72
44060092--44060139	2	24.0	2	100	0	96	50	0	0	50	1.00
44069110--44069231	41	3.1	41	61	17	105	22	15	32	29	1.95
44069094--44069244	76	2.0	75	98	1	293	21	17	31	29	1.96
44076003--44076041	6	6.5	6	90	0	60	48	0	30	20	1.50
44077446--44077548	42	2.5	42	88	0	161	35	19	19	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44081542--44081584	22	2.0	22	90	0	68	18	13	20	46	1.83
44081607--44081658	26	2.0	26	84	0	68	25	23	19	32	1.97
44082281--44082306	11	2.4	11	100	0	52	38	0	34	26	1.57
44084444--44084646	32	6.4	32	81	0	219	20	20	21	37	1.94
44084444--44084646	96	2.1	95	85	0	262	20	20	21	37	1.94
44084638--44084702	22	3.0	22	76	0	67	16	18	20	44	1.87
44084842--44084895	28	1.9	28	92	0	90	16	27	25	29	1.97
44087044--44087188	23	6.3	23	97	0	272	19	21	28	30	1.97
44090831--44090883	21	2.5	21	84	0	79	30	22	28	18	1.98
44090831--44090891	21	2.8	21	85	5	77	32	22	26	18	1.97
44091484--44091556	19	3.7	19	70	24	62	46	1	0	52	1.09
44091634--44091690	15	3.5	15	71	17	51	49	1	1	47	1.22
44093311--44093375	33	2.0	33	96	0	121	47	7	4	40	1.53
44093334--44093383	23	2.2	23	85	0	64	44	10	4	42	1.56
44093344--44093390	23	2.0	23	91	0	76	42	10	4	42	1.59
44093952--44094166	108	2.0	108	93	0	367	27	11	18	42	1.84
44096730--44096777	24	2.0	23	84	4	60	66	4	0	29	1.10
44097137--44097180	23	2.0	20	83	12	52	47	9	15	27	1.76
44097188--44097231	20	2.1	21	87	4	63	54	4	4	36	1.41
44099387--44099426	20	2.0	20	90	0	62	40	20	0	40	1.52
44106751--44106781	15	2.1	15	94	5	55	61	0	6	32	1.21
44107545--44107932	131	2.9	132	88	3	557	26	23	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44107750--44107932	44	4.2	44	68	8	120	25	26	18	29	1.98
44107521--44107934	132	3.1	131	87	2	571	26	24	18	30	1.98
44107926--44108220	89	3.3	89	87	1	387	24	23	24	27	2.00
44108058--44108199	45	3.2	45	68	16	123	23	24	23	28	2.00
44108753--44109111	45	8.0	45	73	9	232	25	24	18	30	1.98
44108789--44109109	134	2.4	134	81	7	359	26	23	18	31	1.98
44111500--44111571	22	3.3	22	94	0	117	30	16	27	25	1.97
44113902--44113966	22	3.0	23	86	8	100	43	16	23	16	1.88
44113906--44114128	25	9.4	25	79	11	213	37	16	24	21	1.93
44120570--44120618	25	2.0	25	95	0	89	48	22	18	10	1.77

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