genome.fa.s20.2.7.7.80.10.50.1000.43.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: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  43  of  189  ( 22580 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)
12643232--12643293	13	4.8	13	85	0	88	25	9	25	38	1.86
12645396--12645429	16	2.1	16	94	0	59	29	11	14	44	1.81
12648467--12648506	12	3.3	12	82	0	53	70	0	27	2	1.01
12649032--12649084	25	2.1	25	82	6	63	26	9	18	45	1.80
12652024--12652053	14	2.1	15	93	6	53	53	0	36	10	1.35
12653246--12653281	16	2.2	16	95	0	63	27	2	11	58	1.46
12660938--12660967	15	2.0	15	100	0	60	80	0	0	20	0.72
12668207--12668247	22	1.9	22	85	5	57	51	24	2	21	1.60
12676651--12676727	32	2.4	32	80	0	91	44	6	24	24	1.77
12681157--12681233	32	2.4	32	80	0	91	44	6	24	24	1.77
12682663--12682701	18	2.2	17	86	13	53	33	0	20	46	1.51
12682927--12683024	23	4.3	23	90	2	162	20	21	26	31	1.98
12682929--12683017	45	2.0	45	95	0	160	19	22	26	31	1.97
12688897--12688945	21	2.4	20	89	3	71	71	0	26	2	0.97
12688897--12688946	17	3.0	17	82	8	59	72	0	26	2	0.96
12705996--12706580	50	11.7	50	71	13	387	31	24	21	22	1.98
12705984--12706590	101	6.0	101	91	0	853	31	24	21	23	1.98
12716946--12716986	14	2.7	15	85	11	57	36	0	0	63	0.95
12716946--12716988	15	2.9	14	80	10	50	34	0	0	65	0.93
12727841--12727914	28	2.7	27	89	6	112	27	28	12	32	1.92
12730952--12730976	8	3.1	8	100	0	50	76	0	0	24	0.80
12739217--12739257	19	2.1	20	86	4	57	31	9	2	56	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12741836--12741919	36	2.3	36	85	2	105	41	17	5	34	1.74
12742123--12742243	43	2.8	43	80	12	149	29	27	19	23	1.98
12747484--12747565	36	2.3	36	84	0	119	23	9	19	47	1.79
12747801--12747846	23	2.0	24	86	4	67	26	21	4	47	1.69
12748259--12748310	21	2.5	21	87	6	70	19	5	40	34	1.75
12749047--12749132	26	3.3	25	85	6	109	52	11	5	30	1.61
12749168--12749231	26	2.5	25	87	2	83	50	10	9	29	1.69
12749072--12749286	95	2.3	95	77	14	237	47	17	8	26	1.76
12749243--12749302	25	2.4	25	80	2	68	45	21	8	25	1.80
12750182--12750246	28	2.3	28	94	2	112	26	24	16	32	1.96
12750429--12750545	62	1.9	62	87	3	173	47	17	8	25	1.76
12750756--12750945	6	30.7	6	83	6	218	60	14	5	19	1.54
12764380--12764414	18	2.0	18	88	5	54	54	5	0	40	1.24
12764427--12764466	17	2.3	18	86	4	55	57	7	0	35	1.27
12786338--12786388	15	3.2	16	75	10	52	70	5	0	23	1.09
12788583--12788634	24	2.2	24	96	0	95	55	25	3	15	1.57
12789148--12789194	13	3.6	13	82	0	58	57	6	2	34	1.36
12789149--12789198	26	1.9	26	91	0	82	60	6	2	32	1.32
12794542--12794582	21	2.0	21	90	0	64	19	29	21	29	1.98
12805862--12805918	28	2.0	28	100	0	114	22	14	7	56	1.62
12811574--12811631	22	2.9	19	80	14	80	44	18	8	27	1.79
12812603--12812646	15	2.9	15	86	3	61	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12814743--12814866	3	41.7	3	73	4	72	33	7	1	57	1.36
12821239--12822071	44	18.8	43	77	6	582	30	18	22	27	1.98
12821241--12822065	133	6.2	131	78	7	691	30	19	23	27	1.98
12823607--12823699	6	15.8	6	74	5	57	26	8	1	63	1.30
12823608--12823694	24	3.7	23	80	7	93	27	9	1	62	1.33
12823651--12823703	27	1.9	28	88	3	81	26	9	0	64	1.24
12823816--12823858	12	3.4	12	81	9	50	18	6	2	72	1.19
12824525--12824752	88	2.6	88	90	1	359	28	24	23	23	1.99
12824868--12825101	44	5.2	43	65	24	115	34	18	20	26	1.96
12825218--12825604	50	7.7	50	71	3	276	34	23	19	22	1.97
12825218--12825588	100	3.7	100	83	0	463	33	23	19	22	1.97
12825199--12825656	100	4.6	100	79	5	444	32	24	19	22	1.97
12827533--12827575	21	2.0	23	86	9	63	25	6	0	67	1.15
12828994--12829030	9	4.1	9	92	0	65	29	10	13	45	1.77
12835825--12835953	63	2.0	63	94	2	224	36	13	13	36	1.84
12836763--12836889	67	1.9	67	83	6	166	38	3	3	53	1.38
12837081--12837146	16	4.1	16	86	0	96	25	27	6	40	1.79
12838994--12839049	21	2.7	21	76	13	62	51	1	3	42	1.29
12842866--12842899	11	3.1	11	91	0	50	8	11	2	76	1.12
12848176--12849387	254	4.8	253	92	2	1970	37	10	15	35	1.83
12848176--12849387	510	2.4	506	92	3	1979	37	10	15	35	1.83
12849477--12849535	31	1.9	31	83	13	77	64	5	1	28	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12860088--12860132	23	2.0	23	90	0	72	42	20	4	33	1.72
12864375--12864419	19	2.4	19	88	0	63	11	13	0	75	1.05
12864820--12864889	27	2.6	27	74	0	68	27	31	31	10	1.89
12865067--12865116	24	2.0	25	84	3	66	12	0	12	76	1.04
12865212--12865417	76	2.6	80	73	9	197	34	3	11	50	1.56
12867558--12867589	13	2.5	13	94	0	55	31	0	12	56	1.37
12867684--12867863	50	3.6	50	84	0	252	28	23	28	18	1.98
12875012--12875043	13	2.5	13	94	0	55	31	0	12	56	1.37
12875138--12875385	50	4.8	50	86	4	300	26	23	29	20	1.99
12875138--12875386	100	2.4	102	87	6	351	26	23	29	20	1.99
12879183--12879214	12	2.7	12	95	0	55	9	34	37	18	1.83
12882344--12883237	159	5.6	158	89	3	1305	27	10	8	53	1.64
12883223--12883255	17	1.9	17	93	0	57	9	9	6	75	1.18
12883189--12883287	49	2.0	49	84	7	128	22	10	5	62	1.46
12883240--12883289	16	3.2	16	70	13	50	22	8	4	66	1.35
12883327--12883463	71	2.0	67	83	8	168	47	11	6	34	1.66
12883553--12883600	10	5.1	10	76	23	59	0	35	0	64	0.94
12883548--12883600	17	3.0	17	82	17	72	0	33	0	66	0.92
12883632--12883702	26	2.7	27	80	4	81	9	35	30	23	1.88
12892694--12892753	16	3.8	16	93	0	102	35	1	36	26	1.67
12892691--12892753	32	2.0	32	96	0	117	34	1	36	26	1.67
12892732--12892822	45	2.0	44	87	2	128	31	5	28	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12892967--12893008	15	2.7	16	82	14	52	52	2	0	45	1.13
12892976--12893017	15	2.9	15	82	10	52	52	0	0	47	1.00
12893048--12893115	33	2.1	33	91	0	109	51	11	1	35	1.48
12894781--12894845	31	2.1	31	100	0	130	33	9	18	38	1.83
12907716--12907770	3	18.7	3	78	17	62	63	1	0	34	1.05
12907718--12907770	11	4.8	11	80	15	65	64	1	0	33	1.05
12907712--12907770	25	2.5	25	84	10	81	62	1	0	35	1.05
12908868--12908894	6	4.5	6	100	0	54	51	0	0	48	1.00
12911431--12911463	16	1.9	18	88	11	52	63	12	0	24	1.28
12914618--12914678	31	2.0	30	87	3	86	42	6	13	37	1.70
12917088--12917149	22	2.7	22	90	5	88	46	1	3	48	1.28
12917123--12917164	16	2.6	16	96	0	75	47	2	4	45	1.36
12917159--12917361	111	1.8	110	91	2	336	40	7	6	45	1.59
12923890--12923924	17	2.1	17	94	5	63	71	11	0	17	1.14
12923854--12923914	22	2.8	22	70	9	61	65	9	0	24	1.23
12923888--12923930	16	2.8	16	86	13	63	67	11	0	20	1.22
12931255--12931311	26	2.2	26	87	0	78	40	1	0	57	1.09
12933826--12933854	2	14.5	2	100	0	58	0	48	0	51	1.00
12933985--12934023	18	2.2	18	90	0	60	23	17	25	33	1.96
12936073--12936130	27	2.1	27	96	0	107	36	13	8	41	1.76
12937327--12937352	3	8.7	3	100	0	52	65	0	34	0	0.93
12946307--12946341	14	2.4	15	90	4	54	68	2	0	28	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12946337--12946438	30	3.4	30	86	2	143	29	21	3	45	1.70
12946700--12946749	10	5.2	10	80	7	59	70	0	30	0	0.88
12946703--12946745	19	2.3	19	88	11	63	69	0	30	0	0.88
12946815--12946842	3	9.3	3	100	0	56	67	0	32	0	0.91
12946955--12947058	32	3.3	31	80	12	97	69	21	8	0	1.21
12946971--12947065	17	5.8	16	72	15	70	65	21	12	1	1.32
12947004--12947042	15	2.6	14	84	15	51	69	17	12	0	1.19
12947153--12947248	15	6.1	15	81	11	111	80	0	19	0	0.72
12947151--12947248	8	12.2	8	77	12	103	79	0	20	0	0.73
12947151--12947248	23	4.5	22	76	20	98	79	0	20	0	0.73

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