genome.fa.s13.2.7.7.80.10.50.1000.43.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  43  of  199  ( 23770 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)
12448032--12448078	24	2.0	23	83	8	58	29	4	0	65	1.11
12449299--12449362	29	2.2	29	83	13	78	45	0	3	51	1.17
12449469--12449541	39	1.9	39	88	5	114	41	2	4	52	1.35
12451651--12451711	25	2.5	24	86	5	95	31	3	14	50	1.59
12451659--12451713	25	2.2	26	96	3	103	32	3	12	50	1.58
12452948--12452996	15	3.3	15	79	0	62	40	0	0	59	0.98
12452949--12453037	30	2.9	30	81	6	106	43	0	2	53	1.13
12453493--12453606	57	2.0	57	98	0	219	37	17	8	35	1.81
12453495--12453621	57	2.2	57	91	0	191	38	17	10	33	1.83
12454113--12454151	5	7.6	5	88	5	60	17	2	0	79	0.84
12455132--12455205	32	2.3	32	81	6	87	41	9	1	47	1.44
12455414--12455490	36	2.2	35	84	9	95	33	3	0	62	1.14
12455455--12455505	26	1.9	26	84	11	68	31	5	0	62	1.19
12482136--12482190	6	9.2	6	75	15	51	40	0	1	58	1.09
12485747--12485777	14	2.2	14	100	0	62	48	6	22	22	1.73
12488006--12488048	22	2.0	22	100	0	86	37	13	25	23	1.92
12490387--12490429	21	2.2	19	83	8	50	53	2	0	44	1.13
12490688--12490726	19	2.1	19	85	0	51	64	20	10	5	1.44
12494280--12494332	4	13.2	4	84	7	63	24	3	0	71	1.02
12494953--12495009	28	2.0	28	100	0	114	40	10	24	24	1.87
12496795--12496832	20	1.9	20	100	0	76	23	28	26	21	1.99
12505925--12505963	14	2.9	14	92	3	62	53	7	17	20	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12517873--12517901	13	2.2	13	100	0	58	24	13	34	27	1.93
12528415--12528445	16	1.9	16	93	0	53	35	12	12	38	1.82
12532804--12532870	31	2.3	27	78	14	71	43	11	7	37	1.70
12533650--12533679	11	2.7	11	94	0	51	30	26	6	36	1.82
12534491--12535235	110	6.7	110	86	3	948	33	21	13	32	1.91
12536271--12536310	21	2.0	21	90	5	64	5	12	5	77	1.09
12537335--12537370	11	3.2	12	85	14	51	44	0	0	55	0.99
12549818--12549884	22	3.1	21	67	25	50	22	2	2	71	1.13
12553303--12553380	27	2.8	28	83	9	81	15	7	3	73	1.21
12553317--12553380	27	2.4	27	86	5	85	15	7	3	73	1.19
12555706--12555800	49	1.9	49	89	0	145	42	9	16	31	1.81
12558782--12558812	15	2.1	15	93	0	53	38	3	32	25	1.72
12561283--12561343	30	2.0	30	83	0	77	24	29	31	14	1.95
12565858--12565993	26	5.2	26	81	0	146	38	23	19	18	1.93
12565861--12565993	52	2.6	52	82	0	176	37	23	20	18	1.94
12578782--12578843	30	2.1	31	93	6	110	46	9	8	35	1.66
12592111--12592159	25	1.9	26	87	4	73	16	16	8	59	1.60
12593203--12593478	117	2.4	117	91	1	437	23	20	30	25	1.99
12593491--12594021	50	10.6	50	64	6	196	30	20	22	26	1.99
12593441--12594021	100	5.8	100	89	1	842	29	21	22	25	1.99
12594227--12594349	45	2.7	45	85	5	124	31	22	24	21	1.98
12594251--12594350	45	2.2	45	87	3	139	31	22	27	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12605709--12605775	33	2.0	33	100	0	134	34	17	20	26	1.96
12609939--12610006	30	2.3	30	97	2	129	26	16	16	41	1.88
12617288--12617340	10	5.1	10	77	8	61	24	9	1	64	1.34
12617300--12617360	22	2.6	22	82	12	70	21	9	3	65	1.37
12618864--12619042	27	6.7	27	82	0	207	20	16	21	41	1.90
12618864--12619064	54	3.8	52	81	5	188	20	16	19	43	1.88
12618862--12619042	81	2.2	81	86	6	253	20	17	21	40	1.91
12622450--12622663	27	7.9	27	83	3	243	20	15	19	44	1.87
12622450--12622676	81	2.8	81	83	5	289	20	15	18	44	1.86
12628811--12628953	76	1.9	78	85	2	200	36	3	18	41	1.68
12640427--12640518	42	2.2	41	83	7	107	15	35	25	23	1.94
12641097--12641122	12	2.2	12	100	0	52	7	15	30	46	1.74
12641191--12641748	114	4.9	114	88	2	748	24	22	26	25	2.00
12641996--12642026	15	2.1	15	93	0	53	19	0	45	35	1.51
12642265--12642311	14	3.3	15	82	8	62	27	0	31	40	1.57
12642330--12642368	7	5.4	7	81	6	51	17	0	46	35	1.49
12642326--12642368	15	2.9	15	86	3	61	18	0	46	34	1.50
12642960--12643848	153	5.9	147	93	3	1408	41	12	17	27	1.86
12648509--12648566	20	3.0	20	80	12	59	55	1	0	43	1.10
12648564--12648825	43	6.1	43	80	7	221	23	17	28	30	1.97
12649234--12649269	15	2.6	14	91	8	56	44	0	0	55	0.99
12649519--12649581	22	2.7	23	87	7	83	26	11	1	60	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12650480--12650513	9	3.8	9	84	0	50	73	11	2	11	1.20
12652125--12652164	21	1.9	21	90	10	64	30	40	22	7	1.81
12652261--12652313	23	2.2	24	77	9	56	47	11	20	20	1.81
12652996--12653025	14	2.1	14	93	0	51	40	0	13	46	1.43
12655626--12655668	21	2.0	21	95	0	77	25	30	13	30	1.94
12666406--12666496	45	2.0	45	100	0	182	49	10	17	21	1.77
12671858--12671906	4	12.2	4	91	0	80	28	0	0	71	0.86
12672919--12672958	21	1.9	21	85	10	55	32	5	15	47	1.66
12677389--12677414	3	8.7	3	100	0	52	69	0	30	0	0.89
12679463--12679489	11	2.5	11	100	0	54	29	37	7	25	1.83
12686515--12686560	12	3.8	12	77	11	58	34	0	2	63	1.07
12686515--12686558	24	1.9	24	90	9	74	36	0	2	61	1.09
12686516--12686569	24	2.3	25	81	12	69	37	0	3	59	1.15
12695938--12696054	25	4.7	24	71	9	83	35	17	26	20	1.95
12695902--12696089	25	7.7	24	68	12	78	35	18	26	20	1.95
12703639--12703824	50	3.8	49	75	11	168	35	19	25	19	1.95
12703639--12703824	25	7.6	25	75	8	123	35	19	25	19	1.95
12707238--12707275	18	2.1	19	90	5	60	73	0	23	2	0.95
12718374--12718538	74	2.2	75	89	2	242	25	20	24	29	1.99
12718930--12719015	15	5.9	15	71	13	63	19	0	45	34	1.51
12720190--12720251	24	2.5	25	97	2	117	53	0	3	43	1.17
12722246--12722279	12	2.8	12	86	0	50	47	14	8	29	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12722319--12722491	16	11.0	16	66	15	101	43	22	2	30	1.68
12722322--12722395	28	2.6	29	95	2	132	45	22	2	28	1.66
12722322--12722462	34	4.5	34	82	8	117	43	23	3	29	1.70
12722406--12722497	25	3.7	24	72	17	89	44	20	1	33	1.59
12722379--12722495	9	13.9	9	66	16	63	42	21	3	32	1.69
12724602--12724828	43	5.3	43	83	2	276	28	19	26	25	1.99
12735031--12735067	16	2.3	16	100	0	74	56	16	8	18	1.64
12756994--12757070	14	5.0	15	71	20	52	42	14	9	33	1.77
12757010--12757049	20	2.0	20	90	0	62	50	12	10	27	1.72
12756998--12757064	34	1.9	35	90	3	109	46	13	8	31	1.74
12757766--12757813	25	1.9	25	95	0	87	31	8	16	43	1.78
12765259--12765390	37	3.6	37	82	3	160	15	10	32	41	1.81
12768067--12768121	25	2.2	25	81	12	60	49	5	1	43	1.36
12768581--12768635	9	5.9	9	76	6	56	36	1	3	58	1.26
12768581--12768635	19	2.9	18	81	7	74	36	1	3	58	1.26
12769727--12769755	14	2.0	15	93	6	51	68	13	6	10	1.37
12773641--12773693	2	27.0	2	94	3	90	52	0	0	47	1.00
12774505--12774573	22	3.2	22	68	4	59	37	24	20	17	1.93
12774471--12774578	43	2.5	43	90	0	171	36	22	20	21	1.96
12774481--12774551	21	3.3	21	70	3	70	33	25	19	21	1.97
12774510--12774667	40	3.9	41	76	9	146	38	18	18	24	1.93
12774593--12774659	20	3.3	20	63	0	53	32	17	20	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12774605--12774666	20	3.1	20	64	0	52	37	19	17	25	1.94
12774890--12774933	20	2.1	21	91	4	72	40	22	4	31	1.74
12781193--12781449	44	5.7	43	76	7	219	31	17	21	30	1.96
12781190--12781452	137	1.9	136	89	0	409	32	17	20	29	1.96
12781193--12781479	44	6.4	44	73	7	202	31	17	20	31	1.96
12781236--12781479	88	2.7	89	75	4	231	31	17	19	30	1.95
12782988--12783038	3	16.7	3	76	11	50	29	1	5	62	1.29
12782979--12783042	28	2.4	27	84	7	85	31	1	4	62	1.25
12794357--12794657	44	6.7	45	75	7	220	31	17	21	29	1.97
12796182--12796232	3	16.7	3	76	11	50	29	1	5	62	1.29

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