genome.fa.s11.2.7.7.80.10.50.1000.100.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  100  of  210  ( 25152 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)
29264539--29264564	5	5.2	5	100	0	52	80	0	0	19	0.71
29264589--29264619	5	6.2	5	100	0	62	0	80	0	19	0.71
29264888--29264931	11	3.9	11	90	3	70	22	31	0	45	1.53
29264888--29264931	22	2.0	23	95	4	81	22	31	0	45	1.53
29265030--29265094	27	2.4	28	97	2	123	40	10	0	49	1.38
29265148--29265224	27	2.9	27	90	0	118	24	24	29	20	1.99
29265535--29265601	19	3.5	19	76	8	82	38	10	1	49	1.46
29265682--29265846	82	2.0	82	96	0	303	46	9	6	38	1.60
29265915--29266010	19	5.2	19	81	5	124	48	0	13	37	1.43
29265915--29266010	37	2.6	37	98	0	183	48	0	13	37	1.43
29266686--29266750	28	2.4	27	89	2	94	46	1	10	41	1.48
29268336--29268385	9	5.6	9	87	0	73	46	20	8	26	1.78
29268336--29268393	9	6.4	9	87	0	53	43	20	8	27	1.81
29268336--29268393	18	3.2	19	83	9	77	43	20	8	27	1.81
29268392--29268466	37	2.0	37	92	0	123	45	13	4	37	1.62
29268594--29268671	38	2.0	39	92	2	131	19	2	26	51	1.60
29268661--29268702	17	2.4	17	92	4	66	19	0	42	38	1.51
29277739--29277773	18	1.9	18	88	0	52	25	25	5	42	1.77
29278253--29278292	9	4.4	9	90	0	62	37	25	10	27	1.88
29278300--29278362	17	3.5	17	69	12	54	49	12	3	34	1.57
29278291--29278365	37	2.0	37	94	0	132	45	14	4	36	1.64
29278518--29278562	23	2.0	23	100	0	90	22	4	33	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29278585--29278614	13	2.3	13	94	0	51	13	0	43	43	1.43
29282080--29282441	126	2.9	126	85	4	471	29	17	14	38	1.90
29282568--29282647	33	2.4	34	83	10	112	43	20	0	36	1.52
29282629--29282702	27	2.7	27	86	13	107	33	17	4	44	1.68
29289338--29289372	2	17.5	2	100	0	70	51	0	48	0	1.00
29290595--29290625	2	15.5	2	100	0	62	51	0	48	0	1.00
29291304--29291406	48	2.1	48	98	0	197	37	13	19	29	1.90
29291908--29291952	21	2.1	21	100	0	90	55	0	0	44	0.99
29292968--29293606	319	2.0	319	96	0	1188	33	15	13	36	1.87
29298848--29298914	33	2.0	33	100	0	134	38	2	2	55	1.31
29301102--29301155	17	3.2	17	89	0	81	35	7	20	37	1.81
29301140--29301186	23	2.0	23	87	4	67	34	6	17	42	1.74
29305254--29305477	30	7.5	30	74	3	121	23	27	12	37	1.90
29305286--29305477	60	3.2	58	74	10	172	21	27	13	37	1.91
29305286--29305477	90	2.1	90	84	3	244	21	27	13	37	1.91
29305316--29305507	30	6.4	30	74	15	141	21	27	13	38	1.90
29312520--29312565	18	2.6	18	82	0	56	21	34	26	17	1.95
29336715--29336916	81	2.5	81	85	0	296	34	23	17	24	1.96
29336717--29336916	27	7.4	27	87	0	265	34	24	17	24	1.96
29340473--29340497	12	2.1	12	100	0	50	60	8	0	32	1.26
29340494--29340543	16	2.9	17	80	19	68	38	0	4	58	1.17
29340494--29340551	15	3.6	16	84	11	66	37	0	3	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29340510--29340561	15	3.4	15	91	2	77	40	0	3	55	1.18
29353384--29353444	31	2.0	31	93	0	104	40	9	14	34	1.79
29355486--29355563	40	2.0	40	86	0	111	34	17	28	19	1.95
29355931--29355987	27	2.1	27	100	0	114	47	29	0	22	1.52
29359896--29360136	50	4.7	51	79	5	204	23	27	21	27	1.99
29359896--29360130	99	2.3	105	79	6	241	22	28	20	28	1.99
29362189--29362217	13	2.2	13	100	0	58	31	0	0	68	0.89
29363778--29363825	3	16.0	3	100	0	96	66	0	0	33	0.92
29364916--29364953	20	1.9	20	84	10	51	21	18	47	13	1.82
29366040--29366102	31	2.1	28	83	13	74	34	11	4	49	1.59
29370188--29370226	20	2.0	20	94	0	69	43	0	2	53	1.14
29370271--29370304	12	2.8	12	83	16	52	50	0	0	50	1.00
29371515--29371731	90	2.4	90	84	1	256	33	19	15	31	1.93
29379466--29379584	24	5.0	24	89	0	166	44	26	12	15	1.83
29379819--29379950	66	2.0	66	100	0	264	34	21	16	27	1.95
29393229--29393754	260	2.0	261	94	0	919	33	19	8	38	1.82
29395640--29395682	21	2.0	21	86	0	59	51	2	13	32	1.54
29397777--29397848	31	2.3	31	88	9	103	31	19	4	44	1.70
29398873--29398928	21	2.8	20	72	2	58	37	3	1	57	1.27
29402662--29402770	43	2.5	43	75	8	105	23	20	19	36	1.95
29405461--29405505	21	2.1	22	83	4	56	35	6	0	57	1.25
29418979--29419165	62	3.0	62	81	1	196	23	26	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29419024--29419185	62	2.6	62	78	3	175	24	27	26	21	1.99
29420574--29420609	16	2.2	16	90	0	54	16	19	19	44	1.87
29421154--29421195	21	2.0	22	85	4	59	54	2	0	42	1.13
29421312--29421349	19	2.0	20	84	5	51	63	5	0	31	1.17
29422356--29422424	35	2.0	34	81	13	79	30	7	8	53	1.59
29424715--29424812	50	2.0	50	84	4	128	25	23	28	22	1.99
29424715--29424833	50	2.4	50	78	2	125	27	22	26	22	1.99
29430940--29431015	23	3.3	23	86	0	116	23	19	25	31	1.98
29434898--29435052	43	3.7	41	84	10	197	36	25	16	20	1.94
29434868--29435094	42	5.4	42	79	8	219	36	26	16	21	1.94
29434863--29435097	85	2.8	85	86	1	312	35	26	16	21	1.95
29442128--29442286	43	3.7	43	79	11	184	37	26	15	20	1.93
29442101--29442327	85	2.7	85	87	2	314	35	26	15	21	1.94
29442101--29442328	42	5.4	40	77	11	181	35	27	15	21	1.94
29444135--29444226	29	3.0	34	61	32	80	28	9	14	47	1.75
29446528--29446706	50	3.6	49	80	5	182	26	22	28	21	1.99
29447053--29447079	14	1.9	14	100	0	54	7	25	0	66	1.17
29449919--29449944	7	3.7	7	100	0	52	11	15	15	57	1.65
29464158--29464632	201	2.4	202	94	0	817	32	21	14	32	1.93
29466428--29466508	26	3.1	26	90	0	135	37	27	18	17	1.93
29466672--29467219	27	20.4	27	79	5	452	19	18	21	41	1.91
29466672--29467219	54	10.2	53	78	3	501	19	18	21	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29467467--29467508	20	2.2	19	86	4	57	16	42	21	19	1.89
29473136--29473442	92	3.3	91	78	5	323	29	15	19	34	1.93
29476020--29476073	25	2.2	25	89	0	81	24	12	46	16	1.82
29477462--29477576	27	4.3	27	85	0	149	40	19	16	23	1.90
29481359--29481712	181	2.0	182	94	0	629	36	11	16	35	1.85
29487600--29487637	6	6.2	6	87	6	58	34	5	0	60	1.19
29487600--29487637	19	2.1	18	90	5	58	34	5	0	60	1.19
29495819--29496002	51	3.6	50	77	9	194	30	28	16	23	1.97
29495817--29496001	101	1.8	101	87	3	273	30	28	16	23	1.96
29498775--29498856	42	2.0	42	85	4	112	32	23	13	30	1.93
29501513--29501699	51	3.7	50	76	8	200	31	28	16	24	1.96
29501511--29501695	101	1.8	101	88	5	284	31	28	16	24	1.96
29501502--29501729	101	2.3	99	76	12	230	30	28	14	25	1.95
29502253--29503049	397	2.0	397	96	0	1450	36	18	12	32	1.88
29504323--29504360	19	2.0	19	100	0	76	31	31	15	21	1.94
29514777--29514833	28	2.0	28	83	6	71	31	24	8	35	1.86
29518255--29518439	101	1.8	102	87	3	275	24	17	27	30	1.97
29518308--29518439	51	2.6	50	84	4	167	23	18	27	31	1.97
29518665--29518696	16	2.0	16	93	0	55	59	0	15	25	1.36
29527157--29527187	16	1.9	16	100	0	62	58	9	6	25	1.54
29530319--29530561	47	5.3	47	68	20	199	44	2	4	49	1.33
29530304--29530600	91	3.3	91	94	1	515	44	3	4	48	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29530324--29530678	91	3.7	97	88	5	441	44	2	3	49	1.33
29530628--29530936	59	5.2	58	67	20	215	43	2	5	48	1.40
29530617--29531026	120	3.4	120	95	2	700	42	2	5	48	1.40
29530858--29530892	18	2.0	17	88	5	52	45	0	0	54	0.99
29530691--29531001	57	5.2	58	64	24	159	42	2	6	47	1.44
29531245--29531277	16	2.1	16	94	0	57	21	33	6	39	1.78
29549451--29549552	27	3.9	27	92	7	183	43	6	3	46	1.49
29549451--29549552	51	1.9	53	94	5	181	43	6	3	46	1.49
29551162--29551293	28	4.8	28	81	6	135	30	28	9	32	1.88
29557112--29557154	3	14.3	3	100	0	86	34	0	0	65	0.93

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