genome.fa.s5.2.7.7.80.10.50.1000.177.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  177  of  208  ( 24913 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)
54108047--54108097	13	3.9	13	80	10	68	35	25	7	31	1.85
54108046--54108097	26	2.0	27	88	3	79	34	25	7	32	1.84
54113084--54113229	33	4.3	33	83	4	130	14	10	35	39	1.81
54113158--54113230	36	2.0	36	89	0	110	15	12	36	35	1.84
54114717--54114756	19	2.1	19	85	0	53	17	32	32	17	1.93
54115457--54115504	8	6.2	8	88	9	73	12	0	35	52	1.40
54115454--54115506	15	3.6	14	85	12	70	13	0	39	47	1.43
54115454--54115506	7	7.1	7	87	8	70	13	0	39	47	1.43
54115457--54115504	23	2.1	23	96	0	87	12	0	35	52	1.40
54117123--54117233	19	5.8	19	89	0	177	39	9	13	37	1.76
54117130--54117233	38	2.7	38	98	0	199	40	8	12	38	1.74
54117123--54117259	19	6.9	21	85	4	114	38	8	14	38	1.76
54123275--54123653	27	11.4	33	68	24	153	31	29	20	17	1.96
54123400--54123477	27	2.9	27	100	0	156	26	33	25	14	1.94
54123298--54123580	130	2.2	130	90	0	442	31	29	21	17	1.96
54123427--54123657	102	2.3	103	91	0	374	31	29	20	19	1.97
54130267--54131176	132	6.9	132	95	1	1573	28	18	24	28	1.98
54131487--54131567	19	4.3	19	90	0	135	39	8	13	38	1.76
54131494--54131575	38	2.2	38	97	0	155	40	8	10	40	1.71
54134464--54134488	12	2.1	12	100	0	50	24	36	24	16	1.94
54134648--54134723	9	8.4	9	92	0	116	44	23	7	23	1.79
54134940--54134976	11	3.5	11	78	14	51	10	24	21	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54134940--54134981	20	2.1	20	100	0	84	14	23	19	42	1.87
54135510--54135567	17	3.6	17	72	27	56	32	0	37	29	1.58
54135939--54135977	13	2.9	14	84	7	62	48	5	25	20	1.70
54140740--54140773	18	1.9	18	88	5	52	38	5	20	35	1.77
54146940--54147009	35	2.0	35	85	0	95	34	15	17	32	1.91
54147189--54147220	2	15.5	2	93	6	55	46	3	0	50	1.17
54148668--54148718	26	1.9	27	84	4	68	45	0	1	52	1.12
54148820--54148898	38	2.1	38	83	4	97	37	2	5	54	1.36
54150570--54150624	21	2.4	23	77	20	62	58	3	3	34	1.33
54150739--54150779	21	2.0	21	85	0	55	56	4	7	31	1.48
54151208--54151254	19	2.5	19	83	10	53	4	21	0	74	0.99
54151342--54151418	19	3.7	21	80	13	68	40	16	6	36	1.75
54151342--54151399	22	2.6	22	81	7	64	41	17	5	36	1.72
54151378--54151450	19	3.8	19	96	0	137	34	16	12	36	1.86
54154453--54154502	3	16.7	3	100	0	100	68	0	0	32	0.90
54155128--54155174	25	1.9	25	86	4	69	63	0	2	34	1.06
54163290--54163324	13	2.6	14	86	4	54	77	0	22	0	0.78
54163321--54163430	6	18.8	6	78	11	79	70	12	4	12	1.32
54163339--54163417	28	2.7	29	84	3	97	72	12	5	10	1.27
54164858--54165642	87	9.0	87	92	0	1291	28	22	25	24	2.00
54164858--54165789	174	5.3	174	89	1	1342	27	22	25	24	2.00
54165623--54165657	15	2.3	15	90	0	52	14	5	42	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54165536--54165744	102	2.0	102	85	0	283	25	21	27	25	1.99
54165449--54165789	189	1.8	189	88	0	529	26	22	26	24	2.00
54165657--54165794	45	3.1	44	66	21	108	28	23	24	22	1.99
54165885--54166043	44	3.6	44	78	5	144	28	21	23	26	1.99
54165885--54166071	44	4.3	44	75	5	139	29	21	21	26	1.99
54170165--54170201	19	1.9	19	94	0	65	32	18	5	43	1.73
54177231--54177281	16	3.0	16	83	11	57	45	0	25	29	1.54
54177380--54177428	26	1.9	25	91	4	80	48	0	28	22	1.50
54177644--54177680	9	4.1	9	92	0	56	27	10	16	45	1.80
54181574--54181646	20	3.8	18	76	16	58	32	1	4	61	1.23
54181593--54181646	20	2.8	20	81	15	60	29	0	5	64	1.16
54183347--54183422	35	2.2	35	92	0	125	26	15	14	43	1.85
54199682--54199822	44	3.2	44	91	0	237	29	23	22	24	1.99
54203424--54203491	21	3.2	21	70	0	73	48	19	17	14	1.81
54203419--54203530	42	2.7	42	92	0	179	46	19	19	14	1.84
54205039--54205071	2	16.5	2	93	0	57	45	0	0	54	0.99
54205531--54205639	41	2.6	41	89	1	164	26	21	28	23	1.99
54208557--54208627	21	3.5	20	71	5	61	53	14	11	21	1.71
54208561--54208775	42	5.0	43	77	7	222	54	12	9	22	1.66
54208572--54208699	21	5.8	24	61	20	62	53	13	10	22	1.71
54208585--54208774	89	2.2	85	84	9	242	55	12	9	22	1.65
54208691--54208762	21	3.4	21	75	7	65	54	9	11	25	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54210191--54210238	19	2.5	19	83	12	55	60	4	0	35	1.16
54214487--54214532	5	9.4	5	95	2	76	17	23	39	19	1.92
54215507--54215544	18	2.1	18	85	14	51	52	0	0	47	1.00
54228514--54228592	40	2.0	40	89	0	122	36	24	17	21	1.94
54228771--54228800	13	2.2	14	94	5	53	20	0	26	53	1.46
54229658--54229792	7	19.0	7	74	8	67	18	1	37	42	1.60
54241192--54241282	43	2.1	43	85	2	121	35	10	8	45	1.71
54241630--54241747	42	2.8	42	84	6	141	22	14	27	35	1.93
54245444--54245477	16	2.1	16	88	0	50	32	32	11	23	1.91
54248295--54248325	12	2.5	12	94	5	53	29	0	9	61	1.28
54250803--54250847	14	3.3	14	78	6	56	26	11	42	20	1.85
54250777--54250847	27	2.7	26	84	6	90	25	9	42	22	1.84
54250809--54250860	27	1.9	27	84	7	70	28	13	36	21	1.91
54263905--54264035	68	1.9	68	93	0	226	22	14	19	44	1.86
54264942--54264985	16	2.8	16	86	10	63	50	2	0	47	1.13
54267707--54267827	42	2.9	42	80	7	120	19	24	16	39	1.91
54267741--54267869	42	3.1	41	79	9	122	13	23	18	44	1.86
54270448--54270499	19	2.8	18	83	13	63	50	11	1	36	1.50
54273632--54273664	2	16.5	2	100	0	66	51	0	0	48	1.00
54273874--54273938	25	2.6	25	92	0	103	29	20	23	27	1.98
54274498--54274556	25	2.3	25	85	8	75	15	11	28	44	1.82
54276463--54276566	22	4.7	22	75	3	93	20	30	19	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54279751--54280070	68	4.7	68	78	0	300	35	18	20	25	1.95
54284135--54284187	12	4.2	12	74	9	52	49	0	11	39	1.39
54284654--54284711	30	1.9	30	82	0	71	56	10	1	31	1.43
54286588--54286639	24	2.2	24	89	0	77	53	9	1	34	1.45
54287281--54287490	101	2.1	102	93	1	359	58	4	5	31	1.40
54291508--54291551	20	2.2	20	83	0	52	59	4	2	34	1.30
54291516--54291553	20	1.9	20	94	0	67	52	2	2	42	1.29
54291892--54291932	21	2.0	21	90	9	66	53	9	12	24	1.68
54292473--54292510	17	2.2	17	90	0	58	31	2	5	60	1.33
54294525--54294553	2	14.5	2	100	0	58	51	0	0	48	1.00
54305404--54305477	31	2.4	31	93	0	121	51	13	9	25	1.71
54309243--54309305	31	2.0	31	96	0	117	33	6	14	46	1.70
54318727--54318762	18	2.0	18	94	0	63	36	5	25	33	1.79
54321986--54322539	271	2.0	271	91	0	892	29	10	14	44	1.79
54323830--54323973	42	3.4	42	82	3	164	43	17	21	18	1.88
54323860--54323995	63	2.2	63	78	2	148	41	17	24	16	1.90
54323830--54323973	21	6.9	21	68	5	85	43	17	21	18	1.88
54334334--54334374	21	2.0	21	90	4	66	65	4	4	24	1.32
54335905--54336191	94	3.0	94	79	1	324	25	20	19	34	1.96
54336044--54336331	139	2.1	138	84	4	366	27	20	20	31	1.97
54335966--54336722	44	16.3	44	64	18	180	27	20	19	32	1.97
54336183--54336770	94	6.3	93	67	17	297	28	20	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54336277--54336745	187	2.5	184	83	4	557	27	19	20	32	1.97
54345662--54345740	34	2.4	31	76	17	79	46	2	3	46	1.34
54347569--54347623	15	3.7	15	85	0	74	18	1	69	10	1.27
54347568--54347623	18	3.1	18	81	0	58	19	1	67	10	1.29
54369382--54369421	21	1.9	21	84	0	53	35	2	7	55	1.42
54381210--54381251	21	2.0	21	85	0	57	40	19	38	2	1.64
54383483--54383771	126	2.3	126	90	1	456	28	19	17	33	1.95
54383803--54383983	96	1.9	96	91	4	303	40	18	2	38	1.63
54384729--54384785	30	1.9	30	82	13	73	61	1	5	31	1.28
54386412--54386442	9	3.3	9	95	4	53	0	41	32	25	1.56

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