genome.fa.s7.2.7.7.80.10.50.1000.162.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  162  of  204  ( 24458 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)
48515091--48515162	38	1.9	36	83	5	90	40	6	0	52	1.28
48519900--48520045	41	3.5	41	84	0	193	24	29	18	27	1.98
48520391--48520934	110	4.8	110	91	7	908	41	14	3	40	1.62
48520583--48520939	114	3.2	114	94	3	641	41	13	3	41	1.62
48522916--48523019	52	2.0	52	92	0	172	44	20	18	17	1.87
48523612--48523655	22	2.0	22	90	0	70	29	2	20	47	1.62
48524207--48524240	18	1.9	18	88	5	52	41	38	5	14	1.70
48533524--48533570	22	2.2	20	85	7	58	53	2	0	44	1.12
48542411--48542496	35	2.5	35	81	9	106	45	0	4	50	1.22
48542438--48542498	24	2.5	23	80	15	61	45	0	4	49	1.23
48542899--48542932	14	2.4	14	90	9	52	47	0	0	52	1.00
48544103--48544134	2	16.0	2	93	0	55	50	3	0	46	1.17
48544962--48545034	37	1.9	38	86	2	103	30	24	1	43	1.63
48545022--48545065	23	1.9	22	82	17	54	38	22	0	38	1.55
48545164--48545239	23	3.3	23	94	0	134	32	26	19	21	1.97
48547036--48547132	45	2.2	45	84	3	124	20	17	21	40	1.92
48552138--48552172	2	17.5	2	100	0	70	51	0	0	48	1.00
48552506--48552670	41	4.0	41	86	3	190	35	23	21	20	1.96
48552639--48552669	16	2.0	15	93	6	53	35	25	19	19	1.95
48553585--48553644	26	2.4	24	74	15	59	48	5	0	46	1.24
48554831--48554860	8	3.8	8	100	0	60	66	0	0	33	0.92
48558474--48558499	3	8.7	3	100	0	52	0	0	69	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48562852--48562906	21	2.7	21	88	2	76	43	3	0	52	1.18
48563201--48563236	2	18.5	2	94	5	65	52	0	0	47	1.00
48564399--48564436	19	2.0	20	85	10	53	13	10	0	76	1.02
48574235--48574260	2	13.0	2	100	0	52	50	0	0	50	1.00
48582622--48582734	41	2.8	41	86	5	131	28	26	20	24	1.99
48582662--48582746	41	2.0	42	93	2	145	29	24	18	27	1.98
48584437--48584461	13	1.9	13	100	0	50	68	24	0	8	1.16
48586857--48586903	22	2.2	21	85	11	60	31	6	2	59	1.34
48588408--48588434	4	6.8	4	100	0	54	22	0	0	77	0.76
48599488--48599539	23	2.3	22	78	18	54	65	0	1	32	1.04
48599513--48599550	19	2.0	19	85	10	51	65	2	0	31	1.06
48599478--48599583	24	4.2	25	69	15	67	61	1	0	35	1.13
48614623--48614680	22	2.6	22	86	0	80	10	12	13	63	1.51
48619641--48619694	24	2.2	24	83	0	63	40	3	7	48	1.49
48624007--48624058	24	2.2	24	85	0	68	38	3	7	50	1.50
48624182--48624239	14	4.1	14	76	6	55	34	3	3	58	1.32
48625681--48625707	3	9.0	3	100	0	54	33	0	0	66	0.92
48628196--48628247	27	1.9	27	84	7	70	3	28	9	57	1.48
48645802--48645859	27	2.1	27	93	0	98	50	18	1	29	1.57
48646245--48646299	25	2.3	25	87	6	78	41	7	0	50	1.30
48647777--48647967	11	18.2	11	71	17	95	37	2	0	60	1.11
48647804--48647965	18	7.9	20	65	22	61	38	1	0	60	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48647769--48647967	41	4.8	41	85	10	251	36	2	0	61	1.10
48647877--48647932	29	1.9	29	82	7	69	37	1	0	60	1.07
48647897--48647957	32	1.9	31	90	3	95	37	1	0	60	1.07
48647939--48647966	9	3.1	9	100	0	56	42	0	0	57	0.99
48653159--48653216	22	2.6	22	91	0	89	34	15	25	24	1.95
48655624--48655651	9	3.1	9	100	0	56	10	21	0	67	1.20
48655667--48655716	17	3.2	17	72	21	63	12	10	22	56	1.65
48658957--48659081	32	3.9	32	97	0	232	28	3	16	52	1.59
48660268--48660304	9	4.1	9	92	0	65	29	10	13	45	1.77
48667728--48667769	22	2.0	20	90	9	66	52	0	0	47	1.00
48667850--48667896	19	2.4	20	96	3	87	48	17	10	23	1.77
48669377--48669416	16	2.4	16	83	4	53	45	5	0	50	1.23
48670062--48670124	30	2.1	30	93	0	108	55	12	4	26	1.57
48672397--48672446	25	2.0	26	88	4	75	40	2	0	58	1.10
48673611--48673909	90	3.3	90	82	6	347	29	6	13	51	1.65
48677933--48678014	42	2.0	42	92	0	137	14	30	28	26	1.95
48677912--48678035	42	3.0	42	82	4	108	16	33	25	23	1.96
48684115--48684201	40	2.3	38	86	7	115	33	4	10	51	1.56
48683994--48684201	76	2.6	76	77	11	215	34	4	10	50	1.58
48687351--48687384	18	1.9	18	94	5	61	14	0	0	85	0.60
48687351--48687384	10	3.8	9	88	11	52	14	0	0	85	0.60
48687124--48687694	154	3.7	155	83	5	728	30	10	7	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48687124--48687694	310	1.8	308	89	3	887	30	10	7	51	1.64
48687829--48688043	9	25.9	9	72	17	132	44	19	1	35	1.59
48687905--48687970	25	2.6	25	85	4	80	43	19	1	34	1.60
48687970--48687998	14	2.1	14	100	0	58	27	20	6	44	1.77
48687998--48688050	7	7.0	7	91	8	70	52	16	0	30	1.44
48687999--48688050	25	2.3	22	87	12	54	53	17	0	28	1.44
48690666--48691508	229	3.8	222	77	11	732	32	21	21	24	1.98
48690751--48691328	114	5.1	112	65	12	273	32	22	20	24	1.98
48691138--48691517	211	1.8	210	83	4	505	32	19	21	26	1.97
48692169--48692205	14	2.4	16	78	17	51	16	0	35	48	1.46
48692312--48692361	15	3.4	15	73	15	50	16	0	28	56	1.41
48694477--48694512	15	2.5	15	90	4	56	11	16	8	63	1.49
48695127--48695536	93	4.4	93	88	4	639	45	12	3	38	1.60
48695253--48695308	9	6.8	9	73	19	59	48	16	0	35	1.46
48695170--48695514	50	7.3	49	71	20	288	46	13	2	37	1.58
48695262--48695311	16	3.2	16	91	2	75	48	16	0	36	1.46
48695127--48695535	186	2.2	186	97	0	773	45	12	3	38	1.60
48695439--48695494	9	6.8	9	73	19	59	48	16	0	35	1.46
48695220--48695494	43	6.1	43	69	19	161	46	12	2	37	1.57
48695448--48695497	16	3.2	16	91	2	75	48	16	0	36	1.46
48695786--48695832	9	5.2	9	89	0	67	51	14	0	34	1.43
48695777--48695832	18	3.1	18	81	0	76	53	12	0	33	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48695777--48695832	27	2.1	27	96	0	103	53	12	0	33	1.39
48695776--48695848	36	2.1	36	84	2	94	56	12	0	31	1.36
48701293--48701327	2	17.5	2	87	0	52	45	0	5	48	1.26
48701610--48701666	2	28.5	2	92	0	96	49	0	1	49	1.11
48702291--48702321	2	15.5	2	100	0	62	51	0	0	48	1.00
48709478--48709502	6	4.2	6	100	0	50	84	0	0	16	0.63
48714601--48714630	14	2.1	15	93	6	53	26	0	0	73	0.84
48715721--48715746	7	3.7	7	100	0	52	26	0	15	57	1.38
48716282--48716715	96	4.4	95	79	11	476	38	17	2	41	1.62
48716509--48716541	7	4.7	7	96	0	57	45	33	0	21	1.52
48716414--48716638	111	2.0	109	87	5	319	42	19	1	37	1.60
48716317--48716715	206	1.9	205	88	1	602	39	17	1	40	1.60
48716709--48716738	15	2.0	15	93	0	51	56	16	0	26	1.40
48720379--48720421	2	21.5	2	90	0	68	46	2	2	48	1.27
48720778--48720817	18	2.2	19	86	4	55	45	17	7	30	1.76
48723960--48724003	19	2.3	19	88	7	63	75	2	0	22	0.92
48733451--48733552	29	3.5	29	69	1	78	22	15	22	39	1.92
48739593--48739626	17	1.9	18	88	5	52	23	2	0	73	0.97
48741855--48741923	34	2.0	34	85	0	93	24	26	23	26	2.00
48743712--48743823	43	2.7	41	81	4	136	30	23	23	23	1.99
48743813--48743850	19	2.0	19	89	0	58	15	31	23	28	1.96
48743987--48744276	97	3.0	94	87	6	402	41	2	17	39	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48744919--48744944	11	2.4	11	100	0	52	57	0	0	42	0.98
48745578--48745604	2	13.5	2	100	0	54	48	0	0	51	1.00
48746959--48747074	34	3.4	33	87	2	160	43	18	9	29	1.81
48748341--48748412	32	2.1	35	83	16	91	19	30	13	36	1.91
48749233--48749336	41	2.6	39	77	10	111	17	23	25	33	1.96
48751071--48751119	22	2.3	22	79	10	57	26	40	10	22	1.86
48751143--48751188	24	1.9	24	86	8	67	23	39	21	15	1.92
48751182--48751247	29	2.3	29	94	0	114	24	40	24	10	1.86
48755708--48755745	18	2.1	19	85	5	51	60	2	0	36	1.11
48756736--48756793	4	14.5	4	92	0	98	25	1	22	50	1.59

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