genome.fa.s5.2.7.7.80.10.50.1000.129.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  129  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)
39543736--39544042	42	7.2	43	83	7	154	31	21	20	26	1.98
39544459--39544494	12	3.0	12	91	0	54	2	36	16	44	1.63
39544480--39544548	21	3.3	21	85	4	77	4	36	20	39	1.72
39550414--39550491	39	2.0	38	87	2	111	52	21	8	16	1.71
39551912--39551950	17	2.3	17	86	8	53	46	2	0	51	1.14
39552370--39552414	7	6.4	7	80	10	56	44	48	0	6	1.29
39552718--39553108	216	1.8	216	94	0	701	26	23	16	32	1.96
39552893--39553245	114	3.1	113	82	2	361	28	23	16	30	1.97
39553572--39553630	15	3.9	16	82	8	63	42	3	1	52	1.28
39553821--39553868	23	2.1	23	84	7	62	43	2	6	47	1.40
39556748--39556840	40	2.3	42	88	5	138	52	6	0	40	1.27
39562577--39562717	40	3.6	39	89	6	198	65	20	2	11	1.34
39567685--39567714	12	2.5	12	94	0	51	0	56	0	43	0.99
39569804--39569862	29	2.1	29	87	9	86	50	0	8	40	1.33
39572034--39572060	14	1.9	14	100	0	54	29	14	29	25	1.95
39573238--39573302	20	3.1	21	70	14	62	61	16	1	20	1.42
39575159--39575217	11	5.5	11	86	8	86	69	0	5	25	1.09
39575157--39575217	20	2.9	21	90	4	88	68	0	4	26	1.09
39575159--39575221	31	2.0	31	93	6	110	66	0	4	28	1.12
39575173--39575272	9	10.6	9	77	17	71	63	2	4	31	1.24
39575931--39575994	18	3.4	18	78	16	67	34	1	0	64	1.03
39575932--39575985	9	5.6	9	77	14	54	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39575939--39575994	10	6.0	9	74	15	51	33	1	0	64	1.04
39575932--39575994	20	3.4	17	78	20	63	34	1	0	63	1.04
39575933--39575996	19	3.3	18	77	12	65	34	1	0	64	1.03
39579796--39579860	29	2.2	29	88	0	94	20	23	12	44	1.84
39585583--39585611	14	2.1	14	100	0	58	31	0	13	55	1.39
39591893--39591940	20	2.4	20	79	6	53	41	0	0	58	0.98
39595451--39595531	34	2.4	34	81	4	92	27	17	18	37	1.93
39595509--39595566	17	3.4	17	72	9	64	27	13	18	39	1.89
39601896--39601959	28	2.3	28	80	20	73	50	3	1	45	1.27
39610687--39610726	15	2.7	15	80	3	55	55	0	0	45	0.99
39611447--39611472	13	2.0	13	100	0	52	46	0	0	53	1.00
39612253--39612301	25	2.0	25	83	0	62	38	0	16	44	1.48
39612696--39612781	43	2.0	43	95	0	154	50	2	24	23	1.61
39612701--39612765	16	4.4	16	67	25	52	50	3	26	20	1.62
39614090--39614186	49	2.0	49	93	0	167	43	6	25	24	1.77
39623202--39623252	19	2.6	19	82	17	61	56	5	0	37	1.23
39627603--39627638	11	3.3	11	96	0	63	44	25	13	16	1.85
39632479--39632586	54	2.0	54	96	0	198	44	12	7	36	1.70
39634487--39634530	20	2.2	20	84	8	54	52	9	6	31	1.59
39649197--39649222	7	3.7	7	100	0	52	15	23	0	61	1.33
39649190--39649223	14	2.4	14	85	0	50	14	17	5	61	1.52
39652358--39652391	16	2.1	16	89	10	52	50	11	2	35	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39654296--39654349	28	1.9	28	100	0	108	44	11	11	33	1.75
39664640--39664709	23	3.0	23	80	2	86	30	11	15	42	1.82
39668460--39668497	18	2.1	18	90	0	58	42	2	39	15	1.61
39672177--39672205	14	2.1	14	100	0	58	41	31	6	20	1.79
39677003--39677073	33	2.2	33	87	5	99	25	38	11	25	1.89
39686604--39686659	24	2.5	21	74	20	51	66	3	23	7	1.33
39689175--39689258	36	2.3	36	76	8	89	16	11	27	44	1.83
39690590--39690632	14	3.0	16	78	21	51	67	6	0	25	1.15
39692437--39693263	132	6.3	132	94	0	1366	24	25	20	29	1.99
39702251--39702284	12	2.8	12	90	0	59	76	17	0	5	0.98
39702251--39702280	4	7.5	4	92	0	51	76	20	0	3	0.92
39702476--39702506	9	3.6	9	91	8	55	77	0	0	22	0.77
39705212--39705398	96	1.9	96	84	2	250	31	28	19	20	1.97
39708213--39708273	28	2.2	28	93	0	104	36	8	0	55	1.30
39708326--39708397	21	3.2	23	75	16	62	38	1	0	59	1.06
39710991--39711140	66	2.3	66	83	4	187	40	19	26	14	1.89
39711692--39711807	43	2.7	43	74	10	128	20	16	32	30	1.95
39711692--39711822	43	3.0	43	72	8	122	24	17	30	27	1.97
39711796--39711890	43	2.2	43	90	0	145	26	28	24	21	1.99
39714742--39714774	17	1.9	17	100	0	66	30	6	6	57	1.47
39715564--39715808	128	1.9	127	88	4	368	25	21	22	30	1.99
39715564--39715810	42	5.9	41	89	2	332	25	21	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39719831--39720130	90	3.3	90	83	5	376	28	8	13	49	1.72
39725795--39725911	38	3.1	38	81	7	114	27	29	23	18	1.98
39726023--39726090	18	3.6	17	74	18	64	35	2	2	58	1.28
39726042--39726179	69	2.1	64	85	9	179	36	4	4	55	1.40
39726084--39726179	32	3.0	32	75	13	106	37	5	4	53	1.43
39728997--39729158	52	3.1	53	79	7	195	31	22	16	29	1.96
39728975--39729159	54	3.5	52	77	11	187	31	23	16	28	1.96
39729843--39729882	21	1.9	21	90	10	64	25	0	17	57	1.40
39730180--39730224	14	3.1	15	84	12	58	31	31	0	37	1.58
39731810--39731848	20	2.0	20	94	0	69	38	7	5	48	1.54
39731953--39732003	23	2.3	22	80	10	59	39	11	1	47	1.52
39732293--39732378	43	2.0	43	100	0	172	46	6	23	23	1.76
39732725--39732761	18	2.1	18	94	0	65	27	8	40	24	1.83
39742883--39742910	12	2.3	12	100	0	56	60	17	7	14	1.55
39752432--39752510	22	3.6	22	85	0	113	31	26	15	26	1.95
39755758--39755794	17	2.2	16	90	4	56	16	2	2	78	0.98
39756485--39756532	21	2.3	21	75	7	53	8	14	4	72	1.23
39757879--39757920	19	2.2	20	86	4	59	76	4	7	11	1.15
39763815--39763860	19	2.3	20	88	3	67	54	2	10	32	1.47
39772233--39772259	13	2.1	13	100	0	54	22	0	18	59	1.38
39775050--39775077	4	7.0	4	100	0	56	25	0	25	50	1.50
39787881--39788032	47	3.2	46	87	3	207	27	11	21	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39792417--39792670	47	5.4	47	88	1	348	28	13	22	35	1.92
39795961--39795990	7	4.3	7	91	0	51	26	0	26	46	1.53
39805082--39805117	14	2.6	14	90	0	63	50	0	27	22	1.50
39807942--39807990	11	4.4	11	84	2	62	18	30	2	48	1.59
39807950--39807996	22	2.1	23	88	4	69	21	25	2	51	1.59
39807977--39808076	51	2.0	51	86	4	139	26	26	3	45	1.68
39808074--39808119	14	3.3	14	84	0	65	41	0	0	58	0.98
39809208--39809233	7	3.7	7	100	0	52	26	0	15	57	1.38
39809859--39809901	18	2.4	18	80	0	59	20	27	4	46	1.71
39810157--39810201	21	2.1	21	84	8	56	28	42	26	2	1.67
39810452--39810505	27	2.0	27	89	7	83	38	38	1	20	1.63
39810473--39810944	22	22.0	22	83	4	583	45	27	0	25	1.58
39810473--39810944	43	11.0	43	85	3	596	45	27	0	25	1.58
39814076--39814770	127	5.5	126	90	3	974	30	23	15	30	1.96
39814076--39814766	252	2.7	252	88	3	991	30	23	15	29	1.96
39814886--39814923	9	4.2	9	80	12	51	57	18	0	23	1.40
39816060--39816092	17	1.9	17	100	0	66	42	9	0	48	1.35
39816316--39816344	15	1.9	15	100	0	58	34	17	6	41	1.76
39818042--39818201	87	1.8	87	81	5	198	35	14	23	26	1.93
39819756--39819793	20	1.9	19	85	15	51	34	28	7	28	1.85
39820833--39820873	19	2.1	20	90	4	66	34	0	12	53	1.38
39825927--39825960	17	1.9	18	88	5	52	55	14	8	20	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39852900--39852950	24	2.1	24	96	0	93	11	23	19	45	1.83
39855511--39855535	6	4.2	6	100	0	50	68	16	0	16	1.22
39857184--39857269	43	2.0	43	97	0	163	30	15	16	38	1.89
39860901--39860938	6	6.3	6	100	0	76	0	31	0	68	0.90
39870013--39870038	13	2.0	13	100	0	52	7	23	46	23	1.78
39870571--39870608	18	2.1	18	100	0	76	44	21	0	34	1.52
39872360--39872391	10	3.2	10	100	0	64	43	18	0	37	1.51
39874389--39874454	19	3.3	19	85	6	87	33	7	6	53	1.54
39878604--39878633	15	2.0	15	93	0	51	36	20	26	16	1.93
39878882--39879047	56	3.1	48	67	23	125	34	10	22	32	1.89

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