genome.fa.s9.2.7.7.80.10.50.1000.158.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  158  of  226  ( 27023 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)
50984318--50984415	50	1.9	51	89	2	153	23	24	32	19	1.97
50991166--50991195	13	2.3	13	94	0	51	50	13	3	33	1.58
50996344--50996369	3	8.7	3	100	0	52	69	0	30	0	0.89
50997685--50997728	23	2.0	23	86	4	63	54	0	4	40	1.21
50997890--50997986	39	2.5	39	79	11	103	43	1	3	52	1.23
51000786--51000821	19	1.9	18	88	5	54	30	2	0	66	1.06
51000785--51000833	18	2.7	18	84	12	64	28	2	0	69	1.00
51000796--51000859	30	2.1	32	85	11	89	29	4	0	65	1.13
51002121--51002164	18	2.6	17	86	10	63	22	29	25	22	1.99
51005266--51005642	124	3.0	124	89	2	533	29	15	21	33	1.94
51008906--51009662	23	34.5	23	77	15	675	28	0	22	48	1.53
51008921--51009004	43	2.0	43	90	0	132	26	0	27	46	1.53
51008985--51009042	28	2.1	28	90	0	89	25	0	25	48	1.52
51009014--51009662	41	15.0	43	78	14	548	29	0	21	48	1.52
51008942--51009644	65	10.8	65	84	9	533	28	0	22	48	1.52
51009057--51009636	150	3.8	152	85	9	651	28	0	21	49	1.51
51009572--51009636	18	3.3	18	69	19	58	29	0	20	50	1.48
51009693--51009728	17	2.1	16	90	10	54	61	8	2	27	1.39
51009693--51009729	18	2.1	17	90	5	56	62	8	2	27	1.37
51010183--51010222	18	2.2	18	95	0	71	40	7	30	22	1.81
51012037--51012151	50	2.3	51	93	4	198	44	0	26	28	1.60
51012075--51012169	22	4.0	22	68	21	59	42	0	28	29	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51012037--51012159	51	2.4	50	92	6	196	43	0	26	29	1.60
51012139--51012185	11	4.2	11	86	2	67	42	0	38	19	1.51
51014914--51014967	25	2.2	25	96	0	99	0	27	25	46	1.53
51015707--51015757	13	3.9	13	77	10	59	37	25	5	31	1.80
51023721--51023753	2	16.5	2	100	0	66	48	0	0	51	1.00
51028460--51028493	2	17.5	2	93	6	61	50	0	0	50	1.00
51036866--51037077	105	2.0	105	83	3	266	27	25	16	31	1.96
51038624--51038682	30	2.0	30	100	0	118	32	27	16	23	1.96
51043592--51043655	23	2.8	23	73	0	65	31	17	29	21	1.96
51056309--51056399	45	2.0	44	89	2	137	31	2	7	58	1.39
51058404--51058435	16	2.0	16	100	0	64	31	6	25	37	1.81
51067000--51067026	12	2.2	12	100	0	54	22	0	0	77	0.76
51069336--51069378	15	2.7	15	79	10	50	46	0	2	51	1.13
51076175--51076561	195	2.0	194	84	5	505	29	18	16	35	1.93
51080683--51080709	2	13.5	2	100	0	54	51	0	0	48	1.00
51099387--51099415	13	2.2	13	100	0	58	13	0	0	86	0.58
51101381--51101422	22	1.9	22	95	0	75	57	0	0	42	0.99
51101946--51101994	22	2.2	22	88	0	71	57	2	0	40	1.10
51101946--51102020	32	2.4	30	82	12	89	54	4	0	41	1.19
51110385--51110601	106	2.1	105	98	0	416	41	5	4	48	1.45
51111065--51111098	6	5.7	6	89	0	50	17	0	14	67	1.23
51115152--51115192	10	4.1	10	79	20	50	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51115692--51116073	189	2.0	191	86	3	529	29	18	16	36	1.92
51118536--51118617	25	3.3	25	82	0	92	34	18	24	23	1.96
51120247--51120328	6	13.7	6	78	0	74	21	17	12	48	1.79
51124037--51124234	105	1.9	105	80	2	236	28	28	13	29	1.94
51125776--51125824	25	2.0	25	84	7	66	61	0	14	24	1.33
51127688--51127722	17	2.1	17	100	0	70	28	5	34	31	1.81
51138904--51139116	105	2.0	104	80	5	232	29	27	14	28	1.95
51139385--51139430	8	5.6	8	84	5	56	80	0	19	0	0.71
51139385--51139426	13	3.3	13	83	3	59	80	0	19	0	0.70
51142905--51142953	24	2.0	25	84	7	66	59	2	16	22	1.47
51154346--51154401	22	2.5	23	83	11	71	62	3	0	33	1.12
51154361--51154399	18	2.2	18	85	0	51	58	5	0	35	1.20
51154937--51154995	10	5.8	10	79	18	59	77	3	8	10	1.08
51155955--51156708	132	5.7	132	90	0	1062	28	24	17	28	1.98
51155989--51156374	44	8.8	44	66	8	156	28	25	17	28	1.97
51155976--51156708	397	1.8	396	88	1	1128	28	24	17	29	1.97
51155955--51156745	265	3.0	265	86	2	1079	28	24	18	28	1.98
51161849--51162182	105	3.2	105	88	0	364	29	26	14	30	1.95
51166901--51167289	30	13.1	30	86	4	540	50	1	10	38	1.43
51166908--51167289	29	12.9	28	82	9	386	50	1	10	38	1.44
51166901--51167289	88	4.4	90	89	4	558	50	1	10	38	1.43
51167696--51167750	21	2.6	21	88	0	83	30	36	9	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51168948--51169026	36	2.2	36	82	11	90	46	10	1	41	1.45
51170152--51170380	105	2.2	105	81	1	253	29	26	14	29	1.95
51178369--51178408	6	6.5	6	97	2	71	67	0	32	0	0.91
51179929--51179966	19	2.0	19	89	0	58	52	2	18	26	1.58
51180498--51180654	18	8.8	17	76	14	147	33	13	9	43	1.76
51180498--51180709	36	5.8	35	75	12	178	33	12	10	43	1.77
51180619--51180695	41	1.9	40	84	10	104	37	10	10	41	1.74
51181778--51181828	21	2.5	19	74	22	50	68	0	23	7	1.15
51182972--51183295	105	3.1	105	87	0	371	29	26	14	30	1.95
51184750--51184785	18	2.0	18	100	0	72	50	0	5	44	1.25
51185027--51185063	18	2.1	18	100	0	74	35	5	5	54	1.47
51189497--51189537	20	2.0	20	95	0	73	19	9	12	58	1.61
51191529--51191609	3	27.3	3	89	2	128	64	2	1	32	1.15
51193013--51193176	85	1.9	85	91	2	267	26	20	23	29	1.99
51193023--51193183	44	3.8	43	77	6	175	26	19	23	29	1.98
51195255--51195282	2	14.0	2	100	0	56	50	0	0	50	1.00
51195370--51195394	11	2.3	11	100	0	50	32	0	0	68	0.90
51195501--51195559	6	9.8	6	73	12	50	61	0	0	38	0.96
51203683--51203911	105	2.2	105	84	1	289	28	26	15	29	1.96
51205630--51205682	3	17.7	3	100	0	106	66	0	0	33	0.92
51208004--51208134	65	2.0	65	98	0	253	19	28	27	24	1.99
51210245--51210282	20	1.9	20	89	10	60	31	2	7	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51210449--51210484	7	5.1	7	93	0	54	19	0	22	58	1.40
51211696--51211795	15	6.7	15	70	10	71	51	30	0	19	1.47
51211691--51211752	31	2.0	32	87	6	92	53	27	0	19	1.45
51211684--51211845	7	22.4	7	70	10	85	46	33	1	18	1.57
51211721--51211809	36	2.4	36	81	5	99	49	33	0	16	1.46
51211684--51211845	14	11.2	14	70	10	94	46	33	1	18	1.57
51211867--51212036	22	7.9	21	74	12	148	47	32	0	19	1.54
51211881--51211913	14	2.4	14	94	0	57	54	39	0	6	1.25
51211853--51212021	43	3.9	43	80	6	200	47	33	0	18	1.53
51211971--51212001	15	2.0	16	93	6	55	48	38	0	12	1.42
51211851--51212012	86	1.9	86	92	2	272	48	31	0	19	1.54
51211988--51212067	30	2.7	30	75	5	83	47	32	0	20	1.50
51212099--51212318	104	2.1	105	96	0	406	38	10	9	41	1.72
51215377--51215889	126	4.1	124	87	5	694	31	22	17	28	1.97
51215377--51215889	250	2.1	250	90	1	814	31	22	17	28	1.97
51216686--51216740	26	2.1	26	96	0	101	34	10	32	21	1.89
51217243--51217284	2	21.0	2	100	0	84	50	0	0	50	1.00
51226909--51226942	2	17.0	2	100	0	68	50	0	0	50	1.00
51227495--51227572	36	2.2	35	81	6	93	46	10	1	42	1.46
51228508--51228546	13	2.8	13	85	11	51	41	0	0	58	0.98
51228509--51228541	16	2.2	16	89	10	52	33	0	0	66	0.92
51229735--51229765	9	3.4	9	90	0	53	25	12	22	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51230888--51230913	5	5.2	5	100	0	52	19	19	19	42	1.90
51231069--51231154	36	2.4	35	79	7	84	48	10	1	39	1.45
51232103--51232143	21	2.0	21	85	9	57	31	29	12	26	1.92
51235302--51235342	3	13.3	3	94	5	73	65	0	0	34	0.93
51235450--51235547	8	12.8	8	73	10	53	62	0	11	26	1.29
51236084--51236123	11	3.6	11	80	12	55	30	12	5	52	1.60
51236084--51236134	22	2.3	22	100	0	102	31	11	3	52	1.56
51236095--51236134	11	3.6	11	80	12	55	32	10	2	55	1.47
51236434--51236487	24	2.3	23	84	15	67	59	7	0	33	1.25
51242978--51243007	13	2.3	13	94	0	51	33	3	13	50	1.58

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226