genome.fa.s2.2.7.7.80.10.50.1000.141.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  141  of  206  ( 24623 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)
43258972--43258997	12	2.2	12	100	0	52	50	19	0	30	1.48
43259432--43259466	16	2.2	16	90	5	54	2	14	0	82	0.77
43260454--43260492	13	3.0	13	100	0	78	30	0	23	46	1.53
43261040--43261102	29	2.2	28	83	10	76	38	3	22	36	1.70
43261694--43261842	41	3.6	40	88	5	208	22	18	23	35	1.95
43261695--43261860	82	2.1	80	85	3	217	22	18	24	35	1.95
43265021--43265071	26	2.0	26	92	0	84	41	9	23	25	1.85
43270670--43270718	20	2.7	18	77	22	57	51	4	2	42	1.32
43283819--43283866	10	4.6	10	77	10	51	37	0	2	60	1.09
43286687--43286721	10	3.4	10	88	4	52	0	20	0	80	0.72
43286690--43286732	21	2.1	20	87	12	61	2	16	0	81	0.79
43288912--43288967	25	2.2	27	81	12	73	62	3	1	32	1.23
43289759--43289817	30	2.0	30	83	6	75	47	10	8	33	1.68
43296513--43296550	2	19.0	2	100	0	76	50	50	0	0	1.00
43297747--43297881	25	5.5	24	71	14	98	26	23	17	31	1.97
43297771--43297881	49	2.3	49	100	0	222	27	22	18	31	1.97
43299440--43299487	4	12.0	4	100	0	96	50	25	0	25	1.50
43300641--43300678	11	3.2	12	81	11	51	28	13	0	57	1.36
43303922--43304030	38	2.8	36	78	14	94	34	10	16	38	1.82
43304132--43304380	85	2.9	85	83	1	311	36	20	16	26	1.93
43308089--43308144	27	2.1	27	100	0	112	42	7	10	39	1.67
43308676--43308732	9	6.1	10	75	17	52	57	1	0	40	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43308676--43308732	19	3.1	19	78	12	64	57	1	0	40	1.09
43308906--43308940	6	5.8	6	100	0	70	82	0	0	17	0.66
43309819--43309879	29	2.1	28	84	3	77	29	13	16	40	1.86
43310096--43310165	22	3.2	22	91	0	113	31	28	0	40	1.57
43310137--43310195	30	2.0	30	89	0	91	30	33	0	35	1.58
43310115--43310217	52	2.0	51	84	5	136	33	32	0	34	1.58
43310167--43310208	22	1.9	22	90	0	66	33	33	0	33	1.58
43310249--43310315	33	2.1	31	86	5	89	35	0	1	62	1.04
43310406--43310439	15	2.3	15	90	5	52	26	0	5	67	1.13
43334670--43334716	23	2.0	23	84	8	60	17	4	10	68	1.35
43334940--43334971	16	2.1	15	94	5	55	18	6	0	75	1.01
43336436--43336482	6	8.0	6	88	4	69	19	0	2	78	0.85
43336429--43336480	6	9.6	5	80	19	52	17	0	1	80	0.80
43336429--43336474	11	4.3	11	84	10	51	17	0	2	80	0.81
43336429--43336480	23	2.4	22	84	9	79	17	0	1	80	0.80
43342139--43342210	29	2.6	29	76	12	71	43	2	41	12	1.57
43350881--43350922	18	2.4	18	88	4	59	21	9	2	66	1.32
43363638--43363704	33	2.0	35	85	5	93	53	5	1	38	1.34
43364636--43364660	11	2.3	11	100	0	50	84	0	0	16	0.63
43369892--43369947	18	3.1	18	84	0	76	35	46	8	8	1.67
43373682--43373736	22	2.4	23	80	17	62	43	5	3	47	1.44
43375147--43375265	60	2.0	60	96	0	220	31	0	13	53	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43375492--43375644	77	2.0	78	87	3	220	31	0	13	54	1.44
43377789--43377897	33	3.3	32	83	5	128	12	44	14	27	1.82
43378092--43378479	79	4.9	79	84	8	493	26	7	9	56	1.59
43378092--43378479	159	2.4	158	86	5	521	26	7	9	56	1.59
43378295--43378452	85	1.8	85	91	4	264	26	8	8	56	1.58
43380145--43380267	33	3.7	33	80	4	149	32	17	22	26	1.97
43380143--43380285	66	2.2	66	94	0	250	33	18	22	25	1.96
43380178--43380285	33	3.3	33	80	5	146	34	18	22	25	1.96
43380146--43380319	66	2.6	66	87	3	217	33	18	23	23	1.97
43381873--43381912	20	1.9	22	90	10	66	45	0	0	55	0.99
43381873--43381912	22	1.9	20	85	10	53	45	0	0	55	0.99
43381864--43381923	30	2.1	28	87	6	84	46	0	0	53	1.00
43382140--43382175	16	2.2	16	90	0	54	63	0	36	0	0.94
43388210--43388247	16	2.4	16	100	0	76	42	5	28	23	1.76
43388352--43388551	102	2.0	103	89	5	307	36	10	12	42	1.76
43388549--43388637	26	3.5	27	75	13	82	53	2	0	43	1.13
43390487--43390576	23	3.8	23	73	13	83	30	5	10	54	1.56
43392517--43392562	19	2.4	18	82	10	56	23	19	8	47	1.77
43395435--43395472	17	2.2	17	86	9	51	71	0	15	13	1.16
43395455--43395501	14	3.5	13	80	13	51	68	0	17	14	1.22
43396785--43397242	44	10.3	44	77	5	429	30	14	23	31	1.94
43396787--43397242	89	5.1	89	83	5	462	30	14	23	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43396785--43397270	133	3.7	133	79	5	500	30	14	23	31	1.94
43398850--43398916	23	2.9	23	80	10	82	31	7	8	52	1.61
43402168--43402207	14	2.9	14	84	0	53	32	7	17	42	1.77
43410221--43410260	21	1.9	21	84	0	53	55	2	10	32	1.47
43410274--43410308	16	2.2	16	94	0	61	65	0	0	34	0.93
43410498--43410546	6	8.0	6	80	19	57	81	0	0	18	0.69
43410498--43410551	7	7.4	7	80	12	56	81	0	0	18	0.69
43410498--43410543	19	2.4	19	85	10	58	82	0	0	17	0.67
43412162--43412621	50	9.2	50	69	1	267	22	21	23	31	1.98
43412104--43412650	100	5.5	100	87	1	711	22	21	24	31	1.98
43412637--43413357	44	16.4	46	67	14	222	29	20	18	31	1.97
43412673--43413482	175	4.6	175	90	0	1257	29	20	18	31	1.96
43412665--43413482	44	18.7	43	66	13	210	29	20	18	31	1.96
43414925--43414966	7	6.0	7	86	10	59	14	16	0	69	1.20
43414917--43414964	15	3.4	14	80	8	62	14	14	0	70	1.16
43414917--43414973	21	2.6	21	80	5	69	15	15	0	68	1.22
43414917--43414972	14	3.9	15	84	11	64	16	16	0	67	1.23
43415846--43415886	18	2.2	20	91	8	68	2	14	0	82	0.76
43420364--43420403	21	1.9	21	84	0	53	55	2	10	32	1.47
43420417--43420451	16	2.2	16	94	0	61	65	0	0	34	0.93
43420641--43420689	7	7.1	7	84	11	57	81	0	0	18	0.69
43420641--43420684	13	3.5	13	84	6	63	81	0	0	18	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43420641--43420689	25	1.9	26	91	4	82	81	0	0	18	0.69
43421109--43421267	10	16.1	9	71	15	50	59	0	0	39	1.02
43421132--43421163	12	2.6	13	80	19	50	59	0	0	40	0.97
43421108--43421289	11	17.9	11	69	20	96	58	0	1	39	1.08
43421108--43421299	40	4.8	40	87	5	248	59	0	1	39	1.07
43427239--43427278	21	2.0	21	90	5	64	42	15	0	42	1.46
43427677--43427739	26	2.4	26	81	5	83	53	3	0	42	1.16
43428526--43428576	13	3.9	13	78	0	57	35	9	19	35	1.85
43428524--43428578	26	2.1	26	89	0	83	34	9	18	38	1.82
43430624--43430788	72	2.3	72	85	4	226	56	13	5	24	1.57
43431994--43432108	20	5.2	20	65	19	68	55	8	7	27	1.58
43431973--43432108	45	3.0	45	100	0	272	55	8	6	28	1.55
43434691--43434855	72	2.3	72	85	4	226	24	5	13	56	1.57
43438681--43438710	12	2.5	12	94	0	51	13	43	13	30	1.82
43439427--43439570	79	1.8	77	88	2	216	47	6	14	31	1.69
43440350--43440387	19	1.9	19	89	5	58	44	18	21	15	1.86
43442639--43442670	2	16.0	2	100	0	64	50	0	0	50	1.00
43442823--43442861	2	19.5	2	94	0	69	46	0	0	53	1.00
43455243--43455267	13	1.9	13	100	0	50	40	0	0	60	0.97
43460108--43460165	25	2.3	25	90	0	89	37	37	6	17	1.76
43462331--43462668	51	6.7	50	76	5	302	29	25	15	29	1.96
43462433--43462668	102	2.3	102	93	0	400	30	27	14	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43463814--43463846	11	2.8	12	90	9	50	36	15	12	36	1.84
43466006--43466044	19	2.1	19	100	0	78	10	15	12	61	1.56
43474640--43474812	85	2.0	86	85	5	235	43	8	21	26	1.80
43478642--43478681	20	2.0	20	100	0	80	5	30	25	40	1.77
43481636--43481708	33	2.2	34	85	7	96	32	26	1	39	1.65
43485590--43485641	9	5.6	9	78	17	61	46	19	7	26	1.77
43485588--43485641	20	2.8	20	88	8	85	48	18	7	25	1.74
43486045--43486130	45	1.9	45	90	4	138	18	2	26	52	1.58
43488549--43488574	13	2.0	13	100	0	52	0	23	0	76	0.78
43497276--43497341	4	16.5	4	100	0	132	25	0	24	50	1.50

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