genome.fa.s5.2.7.7.80.10.50.1000.161.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  161  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)
49198971--49199009	17	2.3	17	81	0	51	71	2	0	25	0.98
49199527--49199583	27	2.1	27	83	0	69	35	1	1	61	1.17
49199550--49199616	33	2.1	30	89	8	98	35	0	0	64	0.94
49199568--49199613	23	1.9	23	86	8	65	32	0	0	67	0.91
49199550--49199607	16	3.5	17	76	23	70	36	0	0	63	0.94
49199572--49199652	37	2.1	40	82	13	107	28	3	1	66	1.16
49199897--49199933	19	1.9	19	88	0	56	75	2	0	21	0.92
49204155--49204198	23	1.9	23	86	9	63	70	4	6	18	1.27
49204168--49204210	17	2.4	19	85	11	56	72	4	11	11	1.27
49204967--49204999	17	1.9	17	88	11	50	36	0	21	42	1.53
49211027--49211051	2	12.5	2	100	0	50	48	0	0	52	1.00
49212671--49212711	21	2.0	21	90	0	64	39	0	0	60	0.96
49229030--49229066	6	6.2	6	87	0	56	45	16	21	16	1.84
49229044--49229153	45	2.4	45	89	3	168	45	20	14	20	1.85
49230650--49230726	5	15.6	5	75	20	65	58	3	0	37	1.17
49234700--49234761	31	2.0	31	81	12	74	56	0	0	43	0.99
49241605--49241727	43	2.9	43	78	11	128	18	19	30	31	1.96
49244148--49244176	15	1.9	15	100	0	58	34	3	6	55	1.44
49246336--49246456	35	3.5	35	86	0	161	38	30	13	17	1.88
49259142--49259269	68	1.9	69	91	1	213	46	19	7	26	1.75
49269685--49269726	16	2.6	16	81	11	50	47	4	23	23	1.70
49269919--49270174	62	4.3	59	78	14	262	51	3	1	43	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49269922--49270174	116	2.1	119	86	8	349	51	3	1	43	1.30
49271002--49271034	13	2.5	14	90	9	52	48	0	12	39	1.40
49275504--49275561	18	3.4	18	83	6	68	27	8	24	39	1.84
49286253--49286314	31	2.0	31	100	0	124	41	9	16	32	1.80
49293298--49293353	26	2.2	25	83	3	67	42	21	17	17	1.89
49300106--49300209	25	4.2	25	77	1	111	31	18	26	23	1.97
49300106--49300249	50	2.9	50	77	11	127	32	17	26	23	1.96
49306473--49306512	18	2.2	18	86	0	53	70	5	12	12	1.33
49312598--49312654	22	2.5	23	83	11	73	82	3	1	12	0.87
49312596--49312654	6	10.3	6	78	10	54	83	3	1	11	0.85
49312616--49312654	17	2.2	18	90	4	62	84	2	2	10	0.81
49312596--49312654	11	5.2	12	74	15	54	83	3	1	11	0.85
49314172--49314249	12	6.4	12	77	15	63	69	5	3	21	1.25
49315042--49315257	109	2.0	109	85	1	290	29	24	25	20	1.99
49317991--49318086	42	2.3	42	92	0	156	19	35	28	16	1.94
49319714--49319765	20	2.6	20	81	0	59	48	11	13	26	1.77
49319900--49319950	20	2.5	20	80	3	57	33	13	9	43	1.77
49324758--49324782	3	8.3	3	100	0	50	68	0	0	32	0.90
49325272--49325320	23	2.1	23	88	0	71	55	8	6	30	1.54
49325396--49325459	25	2.6	25	72	22	62	53	9	3	34	1.49
49326211--49326263	25	2.1	25	86	6	72	60	1	5	32	1.31
49328666--49328728	27	2.3	28	88	2	92	34	1	12	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49329059--49329096	17	2.2	18	85	4	51	34	5	7	52	1.53
49329091--49329162	36	2.0	36	86	0	99	29	4	22	44	1.71
49329100--49329170	18	3.9	18	75	0	61	29	2	22	45	1.67
49329094--49329173	36	2.2	36	84	0	97	28	3	21	46	1.68
49329751--49329859	51	2.1	51	85	9	143	28	9	16	45	1.78
49334104--49334164	29	2.0	31	81	12	74	26	8	4	60	1.45
49336100--49336129	11	2.7	11	89	0	51	56	0	3	40	1.16
49336122--49336149	13	2.2	13	100	0	56	82	0	0	17	0.68
49336985--49337023	19	2.1	19	86	13	55	15	30	23	30	1.95
49338774--49338808	13	2.7	13	81	0	52	42	22	8	25	1.82
49345954--49346012	29	2.0	29	100	0	118	55	6	6	30	1.52
49347491--49347533	12	3.1	14	81	12	54	58	2	0	39	1.11
49347467--49347536	35	2.0	35	83	5	88	58	2	1	37	1.22
49352013--49352077	3	21.7	3	96	0	121	30	0	1	67	1.00
49353887--49353925	20	2.0	20	85	10	53	61	2	10	25	1.41
49353990--49354080	20	4.6	19	73	16	69	71	4	4	19	1.21
49354047--49354097	5	10.0	5	85	8	68	74	1	1	21	1.02
49358097--49358126	2	15.0	2	100	0	60	50	0	0	50	1.00
49361373--49361431	30	1.9	31	86	3	84	30	22	6	40	1.79
49370446--49370479	16	2.1	17	88	5	52	79	2	11	5	1.02
49371645--49371692	22	2.2	22	88	0	69	60	10	2	27	1.41
49372751--49372888	62	2.3	59	84	3	168	24	16	12	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49382486--49382531	24	1.9	24	86	0	65	45	17	26	10	1.81
49390604--49391410	44	18.6	42	70	15	343	27	19	24	28	1.99
49390599--49391237	84	7.4	86	69	15	338	27	20	24	27	1.99
49390598--49391401	217	3.7	217	91	0	1286	27	19	24	28	1.99
49393094--49393137	12	3.7	12	78	0	52	36	4	2	56	1.32
49400548--49400592	23	1.9	24	86	4	65	11	6	6	75	1.18
49400548--49400598	23	2.1	25	82	10	61	11	5	7	74	1.21
49402250--49402287	17	2.3	17	81	4	51	47	5	0	47	1.24
49406704--49406844	43	3.3	43	73	7	117	40	18	17	23	1.91
49414823--49414937	43	2.7	43	82	5	128	22	29	18	29	1.97
49415080--49415144	30	2.1	30	88	2	94	40	15	10	33	1.82
49422316--49422399	31	2.7	31	87	1	98	42	14	9	33	1.78
49425873--49426008	57	2.4	57	78	7	150	25	16	12	45	1.83
49429465--49429580	25	4.6	25	75	4	108	31	21	26	19	1.97
49429465--49429580	50	2.3	50	82	2	135	31	21	26	19	1.97
49431456--49431498	17	2.6	17	82	10	54	53	0	2	44	1.13
49431416--49431512	27	3.6	27	70	12	65	50	0	2	47	1.12
49431438--49431526	33	2.7	36	68	16	84	46	0	3	50	1.18
49431499--49431547	26	2.0	24	84	8	62	46	0	6	46	1.27
49434083--49434150	20	3.5	20	75	18	72	41	23	26	8	1.83
49434066--49434160	38	2.4	40	81	13	101	38	22	28	10	1.87
49434083--49434159	20	4.0	20	71	21	65	40	22	27	10	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49436855--49436884	13	2.2	14	94	5	53	20	0	0	80	0.72
49436852--49436904	19	2.7	20	77	16	65	22	1	3	71	1.12
49440252--49440307	21	2.7	20	86	8	76	28	0	1	69	0.98
49458449--49458481	17	1.9	17	88	11	50	30	21	0	48	1.50
49461850--49461890	17	2.3	18	80	16	50	41	0	0	58	0.98
49462202--49462296	46	2.1	46	100	0	190	47	8	8	35	1.64
49462204--49462278	23	3.2	25	62	14	68	46	9	10	33	1.71
49466061--49466122	26	2.4	26	86	5	81	37	14	12	35	1.85
49472322--49472403	23	3.6	23	84	0	110	18	13	23	45	1.84
49472341--49472441	23	4.4	23	77	2	69	24	14	18	41	1.89
49480530--49480570	22	2.0	20	85	9	55	34	7	17	41	1.77
49481091--49481341	81	3.1	81	81	1	288	11	39	20	29	1.87
49481085--49481341	27	9.5	27	85	1	228	10	39	20	29	1.86
49488144--49488186	13	3.1	14	84	12	54	60	0	0	39	0.97
49490660--49490757	3	32.7	3	82	0	79	56	1	9	33	1.38
49490662--49490717	18	3.1	18	92	0	94	57	0	7	35	1.26
49490659--49490720	21	3.0	21	87	0	88	54	0	8	37	1.30
49494706--49494748	14	3.0	14	89	3	59	37	4	2	55	1.33
49495873--49495936	21	3.0	21	88	0	92	10	20	20	48	1.79
49496463--49496502	21	1.9	21	84	0	53	37	7	15	40	1.75
49498553--49498610	20	2.9	21	82	12	68	34	1	5	58	1.30
49498572--49498610	21	1.9	21	89	5	62	33	2	2	61	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49501185--49501247	11	5.7	11	72	7	56	58	1	1	38	1.17
49502728--49502824	41	2.3	42	87	3	133	5	27	8	58	1.48
49503861--49504000	69	2.0	69	87	0	199	26	7	24	41	1.82
49505183--49505271	37	2.4	37	92	0	151	42	14	7	34	1.75
49505317--49505389	33	2.2	33	95	0	128	42	15	5	36	1.70
49509110--49509164	24	2.2	26	81	12	71	45	0	1	52	1.11
49509288--49509392	44	2.5	40	76	15	113	31	29	4	34	1.78
49509286--49509395	45	2.6	44	81	8	131	31	29	5	33	1.80
49509374--49509411	16	2.4	16	90	0	58	34	34	0	31	1.58
49510107--49510160	19	2.8	19	91	0	90	38	9	16	35	1.81

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