genome.fa.s5.2.7.7.80.10.50.1000.182.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  182  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)
55673551--55673593	22	2.0	22	95	0	77	44	11	4	39	1.62
55676746--55676798	3	17.7	3	100	0	106	33	0	0	66	0.92
55679665--55679849	101	1.8	102	90	3	302	23	18	27	30	1.98
55679664--55679847	51	3.7	49	82	5	217	23	18	27	30	1.98
55679770--55679851	26	3.2	26	65	22	64	23	15	28	32	1.95
55679665--55679857	102	1.9	101	89	3	298	23	18	27	30	1.98
55679853--55679937	46	1.9	43	85	7	116	23	16	27	32	1.96
55680075--55680106	16	2.0	16	93	0	55	59	0	15	25	1.36
55685497--55685846	91	3.8	91	97	0	655	47	3	2	46	1.34
55685497--55686001	91	5.5	91	86	7	650	46	2	3	47	1.32
55685883--55685942	16	3.4	16	75	20	66	45	0	8	46	1.33
55685883--55685962	37	2.2	37	95	2	144	46	0	6	47	1.27
55685958--55685999	15	2.7	16	82	14	52	45	0	2	52	1.13
55685949--55685990	15	2.9	15	82	10	52	47	0	0	52	1.00
55686213--55686277	16	4.1	16	95	0	121	20	35	6	38	1.77
55697417--55697470	28	2.0	28	85	7	76	59	0	5	35	1.21
55698690--55698758	28	2.5	27	83	4	75	30	1	18	49	1.57
55698787--55698854	29	2.4	28	82	2	82	32	5	17	44	1.73
55702457--55702503	22	2.1	22	84	11	60	46	4	21	27	1.69
55708327--55708467	40	3.5	40	86	0	203	46	26	14	12	1.80
55713151--55713262	56	2.0	56	96	0	206	42	3	23	30	1.71
55714649--55714708	27	2.2	27	87	3	84	26	13	21	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55714663--55714927	27	9.9	27	85	3	322	18	17	22	41	1.90
55714663--55714927	81	3.3	81	88	2	374	18	17	22	41	1.90
55717859--55718286	27	15.9	27	82	5	465	20	17	20	41	1.90
55717876--55718286	107	3.8	107	87	3	513	19	17	20	41	1.90
55718972--55719018	24	1.9	25	86	4	69	25	38	0	36	1.56
55723736--55723812	31	2.5	31	85	6	93	15	22	38	23	1.92
55723763--55723825	17	3.8	17	73	23	62	17	19	41	22	1.90
55725816--55725925	40	2.8	40	79	6	125	32	20	25	20	1.97
55725983--55726204	41	5.4	41	88	2	311	20	22	30	26	1.98
55726571--55726600	15	2.0	15	93	0	51	20	0	36	43	1.52
55726604--55726659	21	2.7	20	78	10	67	21	0	37	41	1.53
55726860--55726918	22	2.7	22	82	10	84	22	0	44	33	1.53
55733999--55734029	15	2.1	15	100	0	62	35	19	0	45	1.51
55737580--55737618	16	2.4	16	86	0	51	28	33	2	35	1.71
55737592--55737633	16	2.6	16	92	0	66	30	35	0	33	1.58
55739270--55739303	13	2.6	13	95	0	59	47	5	0	47	1.26
55739574--55739646	36	2.0	36	83	0	92	24	13	32	28	1.94
55742992--55743079	43	2.0	43	95	0	158	25	27	15	31	1.96
55743119--55743321	54	3.8	52	74	8	165	33	17	22	26	1.96
55743232--55743341	57	1.9	56	81	5	132	34	18	21	25	1.96
55743792--55743997	90	2.3	90	86	1	270	27	7	13	51	1.67
55751480--55751618	46	3.0	45	88	2	197	28	24	10	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55756517--55756544	13	2.2	13	100	0	56	14	42	25	17	1.87
55756526--55756581	25	2.2	25	80	0	76	10	35	32	21	1.88
55758160--55758511	102	3.5	102	97	0	668	20	20	26	33	1.97
55758413--55758696	75	3.8	75	94	0	478	20	20	27	32	1.97
55758448--55758659	42	5.5	41	69	19	177	21	18	27	32	1.97
55765919--55766477	33	16.5	33	68	24	235	20	20	27	32	1.97
55765914--55766452	102	5.3	102	93	0	891	20	20	27	31	1.97
55776898--55776981	38	2.3	38	81	8	102	64	2	1	32	1.14
55777299--55777347	20	2.5	20	96	0	89	24	26	12	36	1.91
55777335--55777408	31	2.4	32	82	11	91	44	21	8	25	1.79
55777752--55777807	29	2.0	29	86	6	80	33	10	7	48	1.65
55779550--55779574	13	1.9	13	100	0	50	60	0	0	40	0.97
55779553--55779601	25	1.9	26	83	4	64	53	4	4	38	1.39
55783075--55783121	18	2.5	19	79	3	51	44	2	10	42	1.51
55783764--55783821	30	1.9	30	85	0	80	27	5	15	51	1.64
55785330--55785406	31	2.5	31	78	4	75	36	15	11	36	1.84
55794107--55794382	138	2.0	138	97	0	525	31	11	22	34	1.89
55805625--55805662	20	2.0	20	84	5	51	7	18	5	68	1.34
55807573--55807635	30	2.1	30	93	0	108	36	19	4	39	1.72
55815002--55815048	16	2.8	16	78	18	51	63	0	2	34	1.06
55815093--55815146	17	3.0	17	78	10	54	38	0	1	59	1.08
55815721--55816501	45	17.4	45	87	1	1030	30	17	23	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55816596--55816713	44	2.7	44	84	2	139	29	23	21	25	1.99
55831677--55831716	15	2.5	17	92	8	66	55	2	0	42	1.13
55834186--55834272	29	3.0	29	78	6	95	16	27	33	22	1.95
55835362--55835408	6	7.8	6	78	7	51	2	4	29	63	1.25
55837173--55837206	16	2.1	16	88	0	50	55	0	0	44	0.99
55837184--55837233	24	2.0	25	85	11	68	58	0	0	42	0.98
55843457--55843597	38	3.7	38	76	1	140	34	17	14	32	1.91
55843856--55843896	20	2.0	21	85	4	57	31	19	17	31	1.95
55847650--55847712	21	3.0	21	83	6	65	63	1	1	33	1.13
55853210--55853285	25	2.8	27	84	13	102	46	6	25	22	1.76
55860126--55860236	32	3.4	32	82	6	125	36	8	10	45	1.69
55861161--55861204	18	2.5	17	85	7	61	68	6	6	18	1.35
55861151--55861205	17	3.2	17	79	5	65	61	10	5	21	1.49
55863601--55863628	13	2.2	13	100	0	56	28	14	14	42	1.84
55864289--55864318	10	2.8	11	90	10	53	50	0	0	50	1.00
55867121--55867150	14	2.1	14	93	0	51	46	13	0	40	1.43
55870337--55870677	27	12.6	27	85	0	412	42	21	17	18	1.89
55872407--55872634	40	5.7	40	86	0	321	30	16	21	31	1.95
55872407--55872634	80	2.8	80	91	0	357	30	16	21	31	1.95
55875327--55875382	28	2.0	28	100	0	112	21	28	3	46	1.68
55875629--55875660	14	2.3	14	94	0	55	62	6	3	28	1.34
55876540--55876623	29	2.9	29	91	5	125	14	28	32	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55876888--55876956	27	2.5	28	88	6	97	39	11	1	47	1.49
55876957--55877001	9	5.1	9	83	5	56	84	8	4	2	0.84
55877154--55877332	18	10.5	17	70	16	81	65	0	32	1	1.00
55877156--55877227	10	6.6	10	73	17	54	68	0	31	0	0.90
55877156--55877237	24	3.5	23	73	12	69	68	0	31	0	0.90
55877159--55877232	14	5.1	13	71	25	51	68	0	31	0	0.89
55877174--55877328	38	4.2	36	82	12	158	66	0	32	1	1.00
55877176--55877276	10	10.5	10	72	18	72	65	0	32	1	1.04
55877155--55877338	71	2.5	74	78	11	182	65	0	32	1	1.02
55880671--55880737	26	2.5	27	90	7	102	40	10	0	49	1.37
55880886--55880920	18	1.9	18	88	11	54	60	2	0	37	1.12
55882784--55882820	18	2.1	18	89	0	56	16	43	5	35	1.71
55883658--55883728	3	23.7	3	100	0	142	66	0	0	33	0.92
55884036--55884116	27	3.0	27	88	0	108	11	40	20	27	1.86
55884175--55884230	27	2.0	28	93	3	96	51	0	7	41	1.29
55884179--55884242	27	2.4	27	84	5	85	50	1	7	40	1.41
55885669--55885756	44	2.0	44	86	4	124	22	19	11	46	1.81
55887462--55887514	24	2.2	25	77	16	58	50	3	5	39	1.44
55888597--55888661	21	3.1	21	93	4	105	33	4	15	46	1.66
55890095--55890157	32	2.0	32	90	6	101	28	1	17	52	1.54
55891112--55891187	21	3.7	20	77	18	75	35	7	15	40	1.77
55891110--55891164	21	2.8	19	84	12	76	36	9	16	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55893376--55893406	2	15.5	2	100	0	62	51	0	0	48	1.00
55900778--55900802	7	3.6	7	100	0	50	12	0	0	88	0.53
55905223--55905271	13	3.8	13	75	0	53	42	8	16	32	1.77
55906767--55906810	18	2.4	19	81	7	56	22	2	4	70	1.17
55907067--55907101	18	2.0	18	94	5	63	42	0	0	57	0.99
55907074--55907119	18	2.8	17	83	9	51	45	0	0	54	0.99
55907086--55907142	26	2.2	25	81	3	69	40	0	3	56	1.17
55906990--55907593	120	5.1	120	91	4	940	43	1	4	50	1.33
55907189--55907223	17	2.1	17	100	0	70	34	0	0	65	0.93
55907214--55907271	13	4.3	13	79	16	64	41	1	0	56	1.09

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