genome.fa.s6.2.7.7.80.10.50.1000.110.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  110  of  168  ( 20060 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)
32377471--32377515	19	2.3	19	85	11	56	33	6	0	60	1.23
32389545--32389578	3	11.3	3	100	0	68	67	0	0	32	0.91
32391823--32392148	46	7.6	45	86	7	359	34	13	22	29	1.93
32391905--32392013	36	3.0	36	97	0	200	37	11	21	29	1.89
32391933--32391998	21	3.5	20	63	25	52	34	12	19	33	1.89
32409285--32409962	317	2.1	317	83	5	879	26	16	27	29	1.97
32411568--32411615	14	3.4	14	82	5	60	22	2	2	72	1.05
32411575--32411616	15	2.9	14	80	13	50	19	2	2	76	1.01
32420695--32420733	19	2.1	19	85	0	51	35	2	7	53	1.43
32423391--32423943	110	5.0	111	93	1	885	33	19	16	30	1.94
32425235--32425473	129	1.9	129	79	3	275	25	24	20	29	1.99
32425446--32427446	44	45.9	43	68	12	497	27	22	19	30	1.98
32425362--32425957	218	2.7	217	91	2	948	27	22	19	30	1.98
32425801--32426084	85	3.3	85	71	8	293	29	22	18	29	1.97
32425744--32426088	175	2.0	175	92	1	584	28	22	18	29	1.98
32425492--32426527	393	2.6	393	92	1	1720	28	22	19	29	1.98
32425894--32427270	219	6.3	220	72	11	783	28	22	20	29	1.98
32426104--32427447	175	7.7	175	93	0	2243	27	22	19	29	1.98
32425755--32427444	131	12.9	129	69	12	423	27	22	19	29	1.98
32429612--32429756	69	2.1	66	81	14	170	9	15	5	69	1.33
32429631--32429759	70	1.9	69	83	13	171	10	13	6	68	1.37
32433121--32433562	111	4.0	111	92	1	699	33	19	16	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32433121--32433550	221	1.9	222	92	1	720	33	20	16	30	1.94
32433823--32433884	25	2.4	25	92	7	99	64	0	9	25	1.24
32437505--32437534	16	1.9	15	93	6	51	30	10	0	60	1.30
32445100--32445170	20	3.5	21	74	16	69	33	5	0	60	1.20
32447073--32447140	32	2.2	30	84	7	82	33	1	0	64	1.02
32447073--32447147	31	2.4	32	81	2	89	33	1	0	65	1.01
32450903--32451018	32	3.6	32	78	11	128	42	9	9	38	1.70
32451785--32451849	32	2.0	32	93	0	112	27	30	16	24	1.97
32462132--32462156	6	4.2	6	100	0	50	80	0	0	20	0.72
32463401--32463434	17	2.0	17	88	0	50	64	0	0	35	0.94
32466612--32466680	31	2.3	31	87	2	95	53	4	15	26	1.61
32467032--32467058	7	3.9	7	100	0	54	74	0	0	25	0.83
32472163--32472189	13	2.1	13	100	0	54	14	14	33	37	1.88
32475304--32475340	2	18.5	2	88	0	56	48	0	5	45	1.25
32475325--32475379	20	2.8	20	78	10	58	47	1	10	40	1.49
32475567--32475628	3	20.7	3	81	6	72	61	1	1	35	1.16
32477306--32477390	31	2.7	31	90	5	136	57	0	2	40	1.11
32477330--32477429	41	2.4	41	91	3	164	59	0	4	37	1.17
32477306--32477399	11	8.9	11	76	14	92	57	0	2	40	1.11
32478284--32478314	16	1.9	16	93	0	53	48	9	6	35	1.62
32478432--32478478	21	2.5	19	75	18	53	38	2	0	59	1.09
32478481--32478531	19	2.5	21	72	15	54	37	0	3	58	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32478481--32478533	20	2.7	20	72	0	52	35	0	3	60	1.15
32478642--32478695	23	2.3	23	81	6	65	38	22	7	31	1.82
32480619--32480666	21	2.3	21	82	7	62	79	2	2	16	0.93
32482378--32482404	12	2.2	12	100	0	54	0	14	0	85	0.61
32487716--32487757	21	2.0	21	85	0	57	33	0	16	50	1.46
32488971--32489036	26	2.6	25	80	7	78	16	25	22	34	1.95
32489074--32489132	24	2.5	24	91	0	91	18	27	18	35	1.94
32489096--32489160	24	2.6	26	83	9	82	18	24	18	38	1.93
32494556--32494599	22	2.1	21	84	16	56	68	0	4	27	1.09
32501609--32501652	19	2.3	20	88	7	65	27	22	6	43	1.78
32507038--32507412	189	2.0	189	89	2	583	34	17	20	27	1.95
32509163--32509336	50	3.5	49	84	1	204	28	23	28	19	1.98
32509111--32509336	100	2.2	103	82	7	282	28	22	27	21	1.99
32511346--32512342	501	2.0	501	89	0	1521	33	15	22	27	1.95
32513283--32513790	44	11.1	44	74	8	404	32	16	19	31	1.94
32513283--32513791	95	5.5	88	86	2	313	32	16	19	31	1.94
32513335--32513791	95	4.9	95	86	2	516	32	16	19	30	1.95
32513232--32513789	139	4.0	132	74	11	463	33	16	19	30	1.94
32515236--32515311	3	25.7	3	90	2	118	30	2	1	65	1.14
32517510--32517597	39	2.2	40	84	9	110	36	7	18	37	1.80
32528588--32528655	21	3.1	23	77	12	63	48	5	2	42	1.42
32530242--32530284	18	2.4	18	88	3	61	39	4	6	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32540338--32540378	20	2.0	20	90	0	64	53	7	0	39	1.29
32540732--32540841	50	2.2	49	82	7	125	60	3	8	28	1.43
32543410--32543508	28	3.6	27	81	9	119	31	12	28	28	1.92
32544444--32544589	25	6.2	24	73	18	121	28	12	15	44	1.82
32544445--32544564	22	5.2	22	75	17	109	27	11	15	45	1.80
32544447--32544609	47	3.5	46	84	7	195	28	12	15	42	1.84
32547303--32547362	27	2.3	27	97	2	113	26	11	13	48	1.76
32550808--32550865	22	2.6	23	75	10	57	20	17	17	44	1.86
32553475--32553958	44	10.8	44	72	8	307	29	19	18	33	1.95
32553472--32553957	132	3.6	131	77	9	396	29	19	17	33	1.95
32553720--32553977	139	1.9	138	87	5	387	29	18	18	33	1.95
32559322--32559352	9	3.4	9	90	0	53	25	12	22	38	1.90
32559406--32559442	9	4.1	9	92	0	65	45	13	10	29	1.77
32559656--32559715	30	2.0	31	83	3	77	20	38	0	41	1.52
32561083--32561137	25	2.1	28	83	10	71	27	0	3	69	1.05
32566645--32566697	16	3.2	16	94	5	97	37	37	0	24	1.56
32566796--32566847	15	3.5	15	75	15	54	9	1	15	73	1.18
32568488--32568545	3	19.3	3	77	7	55	60	3	5	31	1.35
32568574--32568622	12	3.9	12	84	15	64	75	2	6	16	1.09
32568830--32568933	52	1.9	53	84	5	138	55	2	7	33	1.43
32571604--32571641	2	19.0	2	100	0	76	50	0	0	50	1.00
32575357--32575399	23	1.9	22	85	4	59	67	0	2	30	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32580710--32580744	19	1.9	17	88	11	52	65	11	2	20	1.37
32583456--32583482	13	2.1	13	100	0	54	22	22	14	40	1.90
32584491--32584547	28	2.0	28	93	6	98	43	14	8	33	1.76
32587756--32588131	193	2.0	191	82	5	463	29	10	19	41	1.84
32597174--32597215	15	2.8	15	85	0	57	59	2	7	30	1.37
32597174--32597213	18	2.2	18	90	0	62	60	2	5	32	1.32
32597191--32597215	12	2.1	12	100	0	50	60	0	8	32	1.26
32598154--32598208	28	2.0	28	85	0	74	80	9	1	9	0.99
32599368--32599546	90	2.0	90	97	0	340	26	24	10	38	1.88
32604718--32604760	2	21.5	2	100	0	86	51	0	0	48	1.00
32606529--32606564	3	12.0	3	100	0	72	66	0	0	33	0.92
32612942--32613303	159	2.3	153	82	4	413	25	24	15	34	1.95
32614100--32614127	2	14.0	2	100	0	56	50	0	0	50	1.00
32615856--32615899	22	2.0	23	82	13	56	38	9	2	50	1.47
32631349--32631574	115	2.0	113	91	1	362	41	8	15	34	1.79
32632109--32632142	2	17.0	2	100	0	68	0	50	0	50	1.00
32634448--32634498	20	2.7	19	76	8	50	25	15	3	54	1.58
32637394--32637424	2	15.5	2	100	0	62	48	0	0	51	1.00
32640160--32640197	17	2.2	17	86	9	51	60	7	2	28	1.38
32640442--32640484	12	3.5	12	79	17	52	48	0	0	51	1.00
32650477--32650510	12	2.9	11	87	12	50	70	0	2	26	1.01
32652903--32652948	23	1.9	23	82	8	56	58	0	2	39	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32652917--32652962	21	2.1	22	84	15	60	58	0	2	39	1.10
32652918--32652970	11	4.9	11	82	13	65	54	0	3	41	1.18
32654892--32654996	31	3.4	30	72	7	86	38	9	5	46	1.60
32654852--32654958	32	3.3	32	74	7	92	33	10	2	53	1.49
32654924--32655020	31	3.2	30	74	21	76	39	12	5	43	1.65
32666109--32666133	13	1.9	13	100	0	50	40	0	0	60	0.97
32666116--32666157	21	2.0	22	90	4	68	50	0	0	50	1.00
32668651--32668675	11	2.3	11	100	0	50	36	16	8	40	1.77
32670852--32670925	27	2.7	27	80	0	85	31	29	16	22	1.96
32674424--32674511	31	2.7	32	89	10	133	31	5	3	59	1.38

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