genome.fa.s5.2.7.7.80.10.50.1000.203.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  203  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)
61707326--61707373	19	2.5	19	82	0	60	29	43	18	8	1.79
61707939--61707984	17	2.6	17	83	12	58	30	15	8	45	1.76
61708169--61708258	44	2.0	46	89	6	139	32	12	13	42	1.81
61708233--61708302	17	3.9	17	75	14	77	31	12	12	42	1.81
61708233--61708421	20	9.8	18	69	23	84	33	12	11	42	1.78
61708324--61708382	18	3.4	17	80	15	68	40	6	8	44	1.61
61708345--61708382	17	2.3	17	90	4	60	39	5	10	44	1.61
61708457--61708498	19	2.2	19	83	8	50	45	4	9	40	1.58
61711516--61711558	23	1.9	23	85	4	61	39	4	4	51	1.44
61711797--61711822	12	2.2	12	100	0	52	50	0	7	42	1.31
61713178--61713244	9	7.3	9	77	9	64	26	4	0	68	1.08
61723819--61723858	2	20.0	2	100	0	80	50	0	0	50	1.00
61734818--61734851	2	17.5	2	87	6	52	50	2	0	47	1.16
61739750--61739862	58	1.9	58	98	0	217	36	30	17	15	1.91
61740102--61740143	22	2.0	20	82	17	50	7	11	19	61	1.52
61740434--61741177	80	9.3	80	94	0	1276	37	34	3	24	1.74
61740434--61741177	240	3.1	240	98	0	1411	37	34	3	24	1.74
61741145--61741207	33	1.9	33	90	0	99	41	22	4	31	1.74
61741074--61741290	112	1.9	113	85	4	305	39	28	5	26	1.79
61741169--61741346	80	2.2	80	81	3	205	36	30	6	26	1.82
61740986--61741344	192	1.9	193	87	1	533	37	32	5	25	1.78
61744511--61744564	21	2.3	26	75	21	64	46	3	7	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61755964--61756243	142	2.0	142	97	0	533	32	20	19	27	1.97
61763141--61763175	2	17.5	2	100	0	70	51	0	0	48	1.00
61764260--61764328	28	2.4	29	80	11	97	34	4	0	60	1.16
61764266--61764351	37	2.3	37	82	9	113	41	3	0	54	1.17
61764711--61764756	9	5.2	9	89	5	67	39	28	10	21	1.87
61764711--61764756	17	2.6	18	82	6	67	39	28	10	21	1.87
61765561--61765633	30	2.4	30	77	8	78	54	13	1	30	1.47
61770976--61771000	3	8.3	3	100	0	50	68	0	0	32	0.90
61776839--61776880	18	2.3	19	83	8	59	50	28	2	19	1.60
61788964--61789004	21	2.0	21	90	0	64	17	17	51	14	1.77
61794424--61794459	18	2.0	18	94	0	63	30	27	11	30	1.91
61794426--61794465	18	2.2	18	86	0	53	27	32	5	35	1.79
61801788--61801824	2	18.5	2	100	0	74	48	0	0	51	1.00
61806367--61806413	6	7.8	6	97	0	76	4	68	10	17	1.35
61806331--61806486	72	2.2	72	91	0	249	14	57	7	21	1.60
61806436--61806485	6	8.3	6	84	0	55	10	68	4	18	1.34
61806436--61806482	24	2.0	24	100	0	94	10	68	4	17	1.35
61808880--61808951	27	2.6	27	88	2	99	47	18	15	19	1.83
61812135--61812191	11	5.1	11	77	12	53	64	3	0	31	1.10
61812639--61812685	23	2.0	23	91	0	76	31	6	19	42	1.76
61813642--61813668	14	1.9	14	100	0	54	44	0	7	48	1.31
61815079--61815142	25	2.6	25	71	0	65	25	28	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61826223--61826325	23	4.7	22	69	21	81	33	2	0	63	1.10
61826208--61826262	16	3.4	16	72	18	51	38	0	0	61	0.96
61826205--61826272	27	2.6	27	78	2	66	33	1	0	64	1.02
61826205--61826318	32	3.5	34	72	20	91	33	2	0	64	1.08
61831819--61831858	3	13.3	3	100	0	80	67	0	0	32	0.91
61832396--61832456	27	2.2	28	88	2	88	34	32	9	22	1.87
61832451--61832488	20	1.9	20	84	10	51	42	28	10	18	1.83
61833270--61833303	6	5.8	6	96	3	61	17	0	0	82	0.67
61839715--61839755	3	13.7	3	100	0	82	68	0	0	31	0.90
61846545--61846672	64	2.0	64	96	0	238	33	4	12	49	1.61
61862040--61862086	22	2.1	22	100	0	94	57	17	19	6	1.60
61866031--61866076	23	2.0	23	87	4	67	60	0	4	34	1.16
61867161--61867496	171	2.0	171	99	0	663	33	11	20	34	1.89
61869198--61869241	18	2.7	15	89	10	61	70	9	0	20	1.14
61891503--61891612	42	2.6	43	77	12	120	32	21	20	25	1.97
61893321--61893521	107	1.8	108	89	4	314	33	21	15	28	1.95
61896043--61896068	3	8.7	3	100	0	52	30	0	0	69	0.89
61897146--61897214	21	3.3	21	62	22	54	26	18	4	50	1.65
61897148--61897231	42	2.0	42	100	0	168	28	19	7	45	1.76
61898161--61898246	27	3.1	30	80	12	94	44	0	3	52	1.18
61898187--61898227	19	2.2	19	86	0	55	51	0	2	46	1.14
61902391--61902438	21	2.3	20	79	10	51	10	8	12	68	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61902661--61902695	16	2.1	16	89	10	52	68	0	0	31	0.90
61903394--61903428	15	2.5	13	90	9	52	28	0	2	68	1.04
61904269--61904304	6	6.0	6	90	9	56	50	0	0	50	1.00
61910449--61910484	17	2.2	17	95	5	65	25	5	5	63	1.38
61914368--61914401	12	2.8	12	100	0	68	23	50	26	0	1.50
61923804--61923897	47	2.0	47	93	0	161	34	13	26	25	1.94
61927732--61927788	25	2.2	26	84	6	80	57	5	8	28	1.50
61928244--61928857	302	2.0	303	82	4	752	36	10	15	36	1.82
61928842--61928869	6	4.7	6	100	0	56	50	0	14	35	1.43
61935591--61935689	23	4.3	23	93	0	162	20	21	27	31	1.98
61940109--61940184	36	2.1	36	95	0	134	44	10	6	38	1.65
61944436--61944555	60	2.0	60	100	0	240	30	15	11	43	1.82
61946084--61946352	131	2.0	133	87	2	382	39	15	21	23	1.92
61948461--61948577	39	3.0	39	81	2	119	34	19	17	29	1.94
61959086--61959153	21	3.1	22	77	12	70	64	1	0	33	1.02
61959111--61959153	22	2.0	22	90	4	70	67	0	0	32	0.91
61963947--61963989	21	2.2	19	83	8	50	55	2	9	32	1.44
61967693--61967811	60	2.0	59	81	4	141	41	16	18	23	1.90
61972219--61972309	45	2.0	45	100	0	182	40	17	10	30	1.84
61972598--61972638	21	2.0	21	90	0	64	56	4	2	36	1.34
61974806--61974863	3	19.3	3	100	0	116	0	34	0	65	0.93
61981230--61981273	20	2.1	21	83	4	54	36	4	11	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61985703--61985769	19	3.5	19	70	8	55	52	4	13	29	1.60
61985790--61985999	111	1.9	110	82	6	255	47	12	16	23	1.81
61986993--61987021	2	14.5	2	100	0	58	0	48	0	51	1.00
61991252--61991385	47	2.8	48	76	6	139	36	12	21	29	1.90
62010842--62010918	29	2.6	29	79	6	82	41	11	18	28	1.85
62012980--62013009	2	15.0	2	100	0	60	0	50	0	50	1.00
62013012--62013043	5	6.4	5	100	0	64	18	0	0	81	0.70
62014354--62014419	32	2.0	33	91	2	107	12	24	9	54	1.66
62014372--62014434	33	2.1	32	82	14	80	11	25	7	55	1.62
62016701--62016764	22	2.9	22	83	0	74	42	20	25	12	1.87
62017282--62017346	19	3.2	19	73	23	60	30	0	4	64	1.14
62018137--62018188	25	2.1	25	92	7	88	25	26	9	38	1.86
62027856--62028631	275	2.8	269	81	6	837	33	27	7	31	1.84
62030253--62030317	29	2.1	29	83	8	76	60	1	0	38	1.07
62030235--62030321	32	2.6	34	74	20	85	57	1	1	40	1.14
62039584--62039635	10	5.0	10	73	17	52	32	0	1	65	1.04
62039628--62039669	21	2.0	21	85	0	57	47	2	2	47	1.28
62048713--62048764	26	2.0	26	100	0	104	23	19	30	26	1.98
62054102--62054134	16	2.0	17	88	5	50	39	0	6	54	1.25
62056630--62056668	2	19.0	2	84	5	51	48	7	0	43	1.31
62056735--62056784	18	2.8	17	82	8	64	58	0	10	32	1.31
62056803--62056859	30	1.9	30	89	3	89	57	8	15	17	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62067992--62068044	26	2.0	27	81	7	63	32	18	5	43	1.74
62073622--62073651	12	2.5	12	100	0	60	50	10	0	40	1.36
62076566--62076774	46	4.6	46	91	1	314	33	14	21	30	1.93
62077374--62077410	14	2.5	15	91	8	58	54	5	8	32	1.53
62078421--62078454	17	2.0	17	94	0	59	44	17	14	23	1.86
62082915--62082941	2	13.5	2	100	0	54	51	0	0	48	1.00
62084857--62084918	28	2.2	28	85	5	81	29	1	1	67	1.09
62084883--62084927	20	2.2	21	81	18	60	28	0	2	68	1.01
62085062--62085109	22	2.2	21	85	7	60	66	2	2	29	1.14
62086376--62086415	21	2.0	21	90	5	64	62	7	5	25	1.42

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