genome.fa.s5.2.7.7.80.10.50.1000.146.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  146  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)
44455887--44456074	45	4.2	45	84	4	220	36	28	14	21	1.92
44460802--44460839	18	2.1	18	100	0	76	57	5	10	26	1.53
44471220--44471255	11	3.2	11	96	4	63	19	36	0	44	1.51
44471219--44471274	11	5.0	11	80	20	55	23	32	0	44	1.53
44471219--44471274	22	2.5	22	81	18	71	23	32	0	44	1.53
44474215--44474245	9	3.4	9	90	0	53	9	41	9	38	1.71
44476485--44476525	13	3.2	13	80	13	57	63	2	17	17	1.42
44477608--44477645	20	1.9	20	100	0	76	65	5	15	13	1.43
44478370--44478416	21	2.2	21	88	0	67	36	34	25	4	1.76
44478696--44478757	14	4.3	15	77	18	53	46	33	0	19	1.50
44478708--44478902	22	8.6	22	78	11	180	51	31	0	16	1.45
44478709--44478775	29	2.3	29	82	12	77	50	34	0	14	1.44
44478728--44478902	94	1.9	94	84	4	237	52	31	0	16	1.45
44478750--44478884	72	1.9	72	87	3	200	52	31	0	16	1.44
44480174--44480738	251	2.3	250	90	0	862	29	22	18	29	1.97
44480178--44480741	125	4.5	125	83	3	715	29	22	18	29	1.97
44482137--44482200	28	2.3	28	77	17	71	50	3	0	46	1.17
44487946--44488143	50	3.8	50	84	6	236	25	22	29	23	1.99
44495421--44495669	50	4.8	50	86	3	300	25	22	29	22	1.99
44497750--44497796	23	2.0	23	84	8	60	70	6	4	19	1.26
44508519--44508550	12	2.6	13	85	14	50	37	0	6	56	1.25
44510450--44510594	41	3.6	41	83	5	213	21	28	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44511360--44511478	59	2.0	59	90	0	184	16	30	28	24	1.97
44525336--44525387	22	2.4	22	86	0	77	48	25	1	25	1.62
44534028--44534108	40	2.0	40	97	0	153	25	18	22	33	1.97
44537733--44537838	29	3.6	29	77	1	113	25	11	17	45	1.82
44539449--44539710	68	3.9	68	84	1	337	26	20	17	35	1.95
44542035--44542072	16	2.6	14	84	15	58	63	2	0	34	1.09
44542042--44542072	16	1.9	16	100	0	62	64	3	0	32	1.09
44561379--44561958	106	5.5	106	88	0	838	33	16	17	32	1.92
44572295--44572331	5	7.6	5	96	3	67	83	0	16	0	0.64
44572480--44572519	17	2.4	17	91	0	62	25	12	0	62	1.30
44589085--44589129	19	2.3	20	81	7	58	28	22	4	44	1.72
44593098--44593124	13	2.1	13	100	0	54	14	14	7	62	1.51
44593331--44593515	51	3.7	50	83	3	228	30	28	15	25	1.96
44601011--44601055	6	7.7	6	82	5	56	22	40	0	37	1.54
44601011--44601055	12	3.8	12	91	2	65	22	40	0	37	1.54
44601011--44601047	18	2.1	18	94	0	65	18	40	0	40	1.51
44610402--44610604	32	6.4	31	86	6	230	41	20	19	18	1.90
44610402--44610604	96	2.1	96	86	2	275	41	20	19	18	1.90
44610746--44610792	24	2.0	24	91	0	76	48	25	12	12	1.77
44610751--44610800	24	2.1	24	88	0	73	50	26	8	16	1.72
44610790--44610840	26	1.9	26	88	4	75	31	23	21	23	1.98
44615786--44615855	26	2.7	26	84	0	95	30	25	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44617337--44617362	4	6.5	4	100	0	52	53	0	23	23	1.46
44633539--44633614	26	2.9	27	73	7	68	22	19	18	39	1.92
44633731--44633792	28	2.2	29	82	8	83	22	19	22	35	1.96
44637394--44637432	14	2.7	15	88	7	55	17	12	10	58	1.61
44643600--44643651	24	2.2	24	85	0	68	19	30	11	38	1.87
44659588--44659635	23	2.1	24	81	11	57	39	6	0	54	1.26
44663168--44663196	2	15.0	2	92	7	51	51	0	0	48	1.00
44664657--44664688	12	2.6	13	85	14	50	56	6	0	37	1.25
44668458--44668800	51	6.8	50	81	5	316	27	16	25	30	1.97
44668819--44668995	75	2.4	75	86	9	261	22	18	26	32	1.97
44669828--44669924	49	2.0	50	84	10	128	26	13	25	34	1.93
44675362--44675407	22	2.0	22	84	12	58	56	4	10	28	1.53
44677331--44677412	3	28.7	3	71	18	50	70	1	2	25	1.06
44677346--44677412	14	4.7	14	77	18	68	74	1	1	22	0.98
44677342--44677408	20	3.3	19	78	17	62	73	1	1	23	1.00
44677342--44677409	8	7.8	8	75	16	55	73	1	1	23	1.00
44678274--44678350	30	2.6	30	80	0	91	18	23	27	31	1.97
44680290--44680456	27	6.1	27	90	5	239	18	17	22	41	1.90
44680286--44680456	55	3.1	54	87	7	256	18	17	22	41	1.90
44697154--44697202	24	2.0	24	100	0	98	42	24	12	20	1.86
44698635--44698668	15	2.4	15	90	9	54	73	0	0	26	0.83
44698637--44698673	19	1.9	19	89	10	58	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44698619--44698672	26	2.0	27	86	10	76	70	0	3	25	1.04
44700723--44700794	35	2.1	35	97	0	135	43	13	22	20	1.87
44700974--44701037	33	1.9	33	87	0	92	46	18	18	15	1.84
44714874--44714926	16	3.2	16	94	5	97	24	0	37	37	1.56
44714907--44714997	45	2.0	45	85	2	121	27	6	28	37	1.82
44715145--44715728	121	4.8	121	95	1	1019	48	6	2	43	1.40
44715145--44715728	243	2.4	242	94	1	1035	48	6	2	43	1.40
44715681--44715749	16	4.4	16	72	20	65	39	11	0	49	1.39
44719166--44719326	43	3.7	43	100	0	322	47	4	2	45	1.36
44720348--44720403	21	2.6	21	85	2	67	37	23	14	25	1.92
44738806--44738905	51	2.0	51	93	0	173	33	14	22	31	1.93
44738864--44738949	37	2.3	37	87	0	136	30	15	22	32	1.94
44738901--44739008	51	2.1	51	89	3	164	26	15	27	29	1.96
44738813--44738976	88	1.9	88	93	0	283	29	14	23	32	1.94
44738819--44739000	88	2.1	88	87	2	267	28	15	24	31	1.96
44740296--44740485	47	4.0	48	77	9	192	26	14	26	32	1.95
44744304--44744471	51	3.3	51	90	1	266	31	14	25	27	1.95
44749216--44749250	17	2.1	17	100	0	70	28	5	17	48	1.69
44749546--44749577	16	2.0	16	93	0	55	65	0	0	34	0.93
44761230--44761263	16	2.1	16	94	0	59	29	2	35	32	1.73
44769349--44769551	101	2.0	101	94	0	352	24	17	11	46	1.82
44775499--44775533	13	2.5	15	86	13	56	60	5	0	34	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44775821--44775862	20	2.2	20	86	4	59	61	0	4	33	1.17
44777612--44778042	181	2.4	180	82	5	521	30	22	16	30	1.96
44777753--44777905	44	3.5	42	77	8	123	30	21	18	28	1.97
44777965--44778125	44	3.6	42	77	9	144	29	24	12	34	1.92
44787923--44787991	3	22.3	3	77	11	68	31	4	2	60	1.31
44800402--44800840	45	9.8	45	85	1	592	31	16	19	32	1.94
44800402--44800847	90	5.0	90	90	1	671	31	16	19	32	1.94
44802590--44802660	3	23.3	3	80	8	72	33	4	1	60	1.25
44802676--44802715	21	1.9	21	100	0	80	35	2	2	60	1.24
44807694--44807727	16	2.2	15	89	5	50	67	5	0	26	1.13
44808202--44808234	17	1.9	17	93	0	57	63	9	0	27	1.24
44815824--44815877	19	2.8	18	74	20	56	50	0	0	50	1.00
44815825--44815858	17	2.0	17	88	0	50	52	0	0	47	1.00
44830116--44830314	99	2.0	99	94	0	344	38	18	14	28	1.90
44835026--44835054	12	2.3	13	94	5	51	20	6	6	65	1.40
44838191--44838230	15	2.7	15	96	0	71	27	27	20	25	1.99
44838333--44838398	33	2.0	33	100	0	132	30	24	12	33	1.91
44841904--44842147	41	6.0	41	78	1	213	34	14	28	21	1.93
44841933--44842143	81	2.6	81	81	1	242	36	14	27	21	1.93
44849329--44849475	20	7.2	20	63	17	61	36	18	29	15	1.92
44849329--44849488	41	3.9	42	79	5	177	36	18	28	16	1.93
44849332--44849488	81	1.9	82	84	3	210	36	19	28	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44858485--44858586	50	2.0	50	90	0	159	31	11	20	36	1.89
44863152--44863291	64	2.2	64	96	0	253	30	18	17	32	1.95
44869793--44869900	54	2.0	54	96	0	198	21	18	18	41	1.90
44871214--44871347	57	2.3	55	81	11	137	44	0	5	50	1.30
44871455--44871547	45	2.1	44	88	9	136	36	23	6	33	1.81
44871529--44871584	16	3.5	16	82	0	76	30	25	5	39	1.78
44879313--44879358	21	2.2	21	88	0	65	41	19	34	4	1.71
44879247--44879443	87	2.3	87	82	1	243	43	17	25	13	1.86
44879761--44879957	43	4.6	43	85	1	243	28	17	27	25	1.98
44881047--44881221	48	3.6	48	80	0	188	24	28	18	28	1.98

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