genome.fa.s5.2.7.7.80.10.50.1000.184.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  184  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)
56286177--56286259	28	3.0	27	79	11	105	62	0	2	34	1.08
56286206--56286287	39	2.1	39	93	4	139	65	0	1	32	1.00
56290879--56290932	22	2.5	22	78	9	56	53	1	0	44	1.11
56299153--56299206	22	2.3	23	81	12	67	38	9	1	50	1.45
56301289--56301327	2	19.5	2	100	0	78	51	0	0	48	1.00
56304316--56304340	12	2.1	12	100	0	50	68	0	8	24	1.16
56306411--56306465	19	2.9	19	88	0	83	34	14	9	41	1.77
56313161--56313204	18	2.4	19	81	14	56	25	2	9	63	1.35
56322734--56322808	20	3.3	20	74	25	78	50	1	8	40	1.40
56324669--56324818	68	2.2	68	84	4	187	24	22	19	34	1.96
56327764--56328040	46	6.0	46	92	1	448	35	9	26	29	1.87
56330080--56330123	16	2.7	17	82	6	56	15	22	0	61	1.34
56330399--56330447	9	5.6	9	75	22	50	63	0	0	36	0.95
56330403--56330447	17	2.5	19	79	17	60	62	0	0	37	0.96
56334893--56334950	20	2.9	20	73	14	57	50	1	0	48	1.11
56335591--56335656	27	2.4	26	82	9	78	57	1	4	36	1.28
56335665--56335721	20	2.8	19	75	17	53	61	1	7	29	1.32
56335666--56335705	20	2.0	21	85	5	55	65	2	5	27	1.27
56335730--56335778	18	2.6	19	87	9	73	53	0	8	38	1.31
56335743--56335781	18	2.2	18	100	0	78	51	0	10	38	1.36
56335748--56335799	18	3.0	17	86	8	61	55	0	5	38	1.24
56336036--56336086	19	2.7	20	87	9	79	56	1	0	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56336181--56336244	30	2.1	30	85	5	83	56	9	4	29	1.51
56338231--56338259	14	2.0	15	93	6	51	20	3	6	68	1.27
56338460--56338488	15	1.9	15	100	0	58	41	3	6	48	1.47
56338634--56338766	72	1.9	70	86	6	189	42	9	7	40	1.66
56338702--56338881	97	1.8	99	81	7	224	47	7	6	37	1.59
56338702--56338902	99	2.1	99	81	9	240	47	7	6	38	1.57
56341717--56341955	123	1.9	124	90	3	383	29	14	22	33	1.94
56345083--56345293	115	1.8	114	89	6	273	41	8	9	40	1.68
56345321--56345447	23	5.5	23	86	0	182	24	2	24	48	1.63
56345323--56345465	23	6.2	22	80	8	99	25	2	21	50	1.62
56345517--56345637	25	5.0	25	75	15	137	43	14	0	41	1.46
56345497--56345650	71	2.2	68	89	8	240	48	13	0	38	1.43
56346941--56346978	20	1.9	20	84	10	51	55	7	2	34	1.43
56350827--56351140	96	3.0	98	81	11	319	40	13	13	32	1.83
56353589--56354192	195	3.0	195	81	12	681	29	14	14	41	1.86
56353585--56354183	294	2.0	300	87	6	867	28	14	14	42	1.85
56353585--56354254	99	6.6	105	79	13	695	30	14	14	40	1.86
56353889--56354254	108	3.5	107	83	5	426	31	15	15	37	1.89
56356576--56356630	25	2.2	25	83	3	65	63	0	3	32	1.12
56357599--56357658	20	3.2	19	79	9	61	36	3	5	55	1.38
56358326--56358552	6	40.0	6	88	11	363	52	0	0	47	1.00
56358365--56358406	3	14.0	3	100	0	84	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56358759--56358805	2	24.0	2	95	4	87	48	0	0	51	1.00
56361203--56361246	11	3.8	11	82	11	61	38	0	0	61	0.96
56363236--56363377	33	4.2	33	69	3	113	34	18	21	25	1.96
56363167--56363472	101	3.0	101	85	3	384	32	16	23	28	1.95
56363303--56363460	33	4.8	32	72	13	122	32	17	22	27	1.96
56363466--56363531	25	2.7	25	84	11	75	50	3	24	22	1.63
56365864--56365951	42	2.1	41	81	8	97	45	19	18	17	1.86
56365904--56365981	21	3.8	21	70	13	54	44	19	15	20	1.86
56379960--56380007	21	2.3	21	85	0	60	47	0	2	50	1.12
56380122--56380152	2	15.5	2	100	0	62	48	0	0	51	1.00
56390675--56391102	44	9.6	44	76	6	328	27	15	24	31	1.96
56390725--56391102	89	4.3	89	75	9	331	27	16	24	31	1.96
56390675--56391102	133	3.2	133	90	0	658	27	15	24	31	1.96
56397387--56397501	57	2.0	56	94	1	203	26	13	19	41	1.87
56406182--56406207	5	5.2	5	100	0	52	19	19	19	42	1.90
56434148--56434286	46	3.0	46	93	0	233	34	9	27	28	1.88
56446140--56446194	21	2.6	21	85	0	74	12	23	20	43	1.86
56453003--56453043	20	2.0	21	86	9	59	43	2	0	53	1.13
56453221--56453275	16	3.4	16	85	9	76	40	5	25	29	1.78
56457925--56457976	3	17.0	3	84	4	68	30	3	1	63	1.23
56458129--56458234	52	2.0	52	82	7	126	39	6	0	52	1.34
56458413--56458444	4	7.8	4	96	3	55	21	3	0	75	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56458768--56458905	69	2.0	70	85	1	188	26	18	17	37	1.93
56460938--56460976	16	2.4	16	86	0	60	66	0	7	25	1.18
56461573--56461617	22	2.0	22	86	4	63	37	17	6	37	1.76
56461936--56461962	13	2.1	13	100	0	54	33	7	14	44	1.73
56462550--56462598	24	2.1	24	88	3	73	10	32	0	57	1.32
56468091--56468299	92	2.3	90	86	8	278	46	3	3	45	1.37
56468227--56468274	24	1.9	25	87	8	71	47	0	2	50	1.12
56468353--56468563	66	3.4	64	69	21	203	41	3	6	48	1.46
56468322--56468603	120	2.4	119	91	7	459	42	3	4	49	1.40
56468440--56468491	15	3.6	15	80	12	56	44	0	1	53	1.11
56468388--56468571	57	3.1	57	66	22	162	42	2	6	48	1.41
56468563--56468606	16	2.8	16	83	13	56	45	0	2	52	1.13
56468708--56468742	18	2.0	17	88	5	52	45	0	0	54	0.99
56468544--56468855	156	2.0	153	90	4	484	47	5	3	43	1.42
56468978--56469013	16	2.2	16	100	0	72	38	36	0	25	1.56
56475197--56475225	14	2.1	14	100	0	58	27	27	6	37	1.82
56487480--56487542	32	2.0	32	93	0	108	22	11	26	39	1.87
56494603--56494636	6	5.7	6	85	0	50	0	23	32	44	1.54
56495106--56495150	14	3.2	14	81	12	65	26	0	2	71	0.98
56495802--56495947	42	3.5	42	80	6	161	22	17	23	36	1.95
56497975--56498031	25	2.3	25	93	0	96	15	10	14	59	1.60
56508007--56508064	22	2.6	23	88	5	91	31	20	27	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56508007--56508074	22	3.0	22	79	16	77	32	20	26	20	1.97
56511598--56511660	21	3.0	21	81	6	74	3	28	12	55	1.52
56511616--56511660	22	2.1	22	87	4	65	2	28	15	53	1.54
56514715--56515165	29	15.2	29	94	4	762	51	0	10	38	1.36
56515476--56515552	39	2.0	39	97	0	145	55	6	15	22	1.62
56519753--56519805	21	2.5	21	93	0	88	30	37	9	22	1.86
56520257--56520287	15	2.1	15	100	0	62	38	29	12	19	1.89
56522339--56522363	5	5.0	5	100	0	50	60	0	0	40	0.97
56524653--56524803	75	2.0	76	96	3	279	16	19	32	31	1.94
56524732--56524867	27	4.5	32	77	17	141	14	22	30	33	1.94
56524732--56524867	60	2.3	60	94	0	236	14	22	30	33	1.94
56526859--56526888	15	2.0	15	93	0	51	20	13	50	16	1.78
56526901--56526935	18	1.9	18	88	11	54	17	14	37	31	1.89
56527720--56527750	15	2.1	15	93	0	53	45	6	16	32	1.72
56531414--56531452	19	2.1	19	85	0	51	58	2	2	35	1.25
56536177--56536912	369	2.0	368	95	0	1310	34	23	17	24	1.96
56538356--56538404	6	7.7	6	84	13	55	83	2	2	12	0.82
56538356--56538404	7	7.4	7	86	6	59	83	2	2	12	0.82
56538674--56538716	20	2.2	20	95	0	77	58	18	0	23	1.40
56538681--56538722	20	2.0	20	90	4	66	59	19	0	21	1.38
56545219--56545265	22	2.1	22	84	7	60	70	4	8	17	1.29
56549622--56549652	16	1.9	16	100	0	62	25	16	6	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56551714--56551738	13	1.9	13	100	0	50	56	16	0	28	1.41
56552276--56552304	2	14.5	2	100	0	58	51	0	0	48	1.00
56556795--56556948	42	3.7	42	90	0	209	16	21	18	43	1.88
56556892--56556964	21	3.5	21	71	0	65	17	21	17	42	1.89
56556800--56556973	42	4.1	42	87	0	114	16	21	17	44	1.86
56556805--56556970	84	2.0	84	80	0	188	16	21	17	43	1.87
56560822--56560954	45	3.0	44	82	11	159	30	27	18	24	1.97
56560785--56560957	43	4.0	43	77	16	171	28	28	18	24	1.98
56563147--56563228	41	2.0	41	100	0	164	21	9	24	43	1.83
56570148--56570286	46	3.0	46	90	2	217	35	9	25	29	1.87

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