genome.fa.s2.2.7.7.80.10.50.1000.41.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  41  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)
11652440--11652657	116	1.9	116	96	0	400	43	9	8	38	1.69
11652744--11652799	22	2.5	22	97	2	103	39	0	32	28	1.57
11652760--11652816	10	5.2	11	74	21	57	43	0	35	21	1.52
11654812--11654848	3	12.3	3	88	0	56	32	2	2	62	1.23
11654898--11654952	20	2.5	24	77	22	66	30	5	5	58	1.44
11656985--11657547	153	3.7	153	87	4	787	49	7	10	32	1.64
11657571--11657805	119	2.0	119	93	0	400	27	10	10	51	1.68
11662876--11662929	27	2.0	27	100	0	108	33	25	14	25	1.95
11681026--11681052	7	3.9	7	100	0	54	11	0	0	88	0.50
11685769--11685794	5	5.2	5	100	0	52	38	19	19	23	1.93
11690358--11690387	5	6.0	5	100	0	60	40	20	0	40	1.52
11693378--11693420	21	2.0	21	82	8	52	20	37	0	41	1.53
11693526--11693585	30	2.0	31	83	3	77	18	40	1	40	1.60
11694334--11694364	5	6.2	5	100	0	62	19	19	19	41	1.90
11699433--11699502	35	2.0	35	100	0	140	37	8	14	40	1.76
11700671--11700742	26	2.8	25	78	18	69	29	4	1	65	1.20
11705191--11705232	21	1.9	23	85	9	61	21	23	4	50	1.68
11706594--11706802	46	4.6	46	94	2	361	28	23	15	32	1.95
11708610--11708651	21	2.0	21	81	9	50	45	9	4	40	1.58
11711447--11711490	23	2.0	23	86	13	65	54	0	0	45	0.99
11718159--11718183	2	12.5	2	100	0	50	0	0	48	52	1.00
11721469--11721506	18	2.2	17	90	4	58	76	0	5	18	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11721675--11721714	2	20.5	2	94	5	73	52	0	0	47	1.00
11732232--11732318	42	2.1	42	84	4	113	18	20	17	43	1.88
11732289--11732343	21	2.7	20	81	18	76	14	23	20	41	1.89
11732250--11732343	42	2.2	42	84	0	116	15	22	18	43	1.87
11732332--11732372	21	2.0	21	85	9	57	12	12	21	53	1.70
11736280--11736364	24	3.5	24	83	0	116	14	57	9	18	1.63
11743009--11743144	40	3.3	40	84	6	166	24	19	25	30	1.98
11743167--11743493	46	7.5	44	75	11	239	26	22	22	28	1.99
11743167--11743493	87	3.8	88	75	6	324	26	22	22	28	1.99
11743152--11743493	173	2.0	174	94	1	598	26	22	21	29	1.99
11743630--11744213	88	6.6	88	92	1	979	25	24	23	27	2.00
11747130--11747567	44	9.7	44	71	9	290	33	18	19	28	1.96
11747130--11747446	132	2.4	133	83	7	374	34	18	18	28	1.95
11750727--11750788	23	2.5	24	75	15	63	37	0	4	58	1.20
11750729--11750789	32	1.9	31	83	12	79	36	0	4	59	1.19
11751204--11751253	25	2.0	25	84	7	66	30	4	2	64	1.23
11754844--11754884	20	2.1	19	86	13	57	60	2	4	31	1.30
11756406--11756439	13	2.6	13	86	13	52	20	0	2	76	0.92
11757805--11757907	42	2.5	42	85	0	125	47	19	15	17	1.83
11761198--11761250	3	17.7	3	100	0	106	32	0	0	67	0.91
11771268--11771320	11	4.5	11	75	11	52	32	5	1	60	1.31
11771930--11772325	200	2.0	200	96	0	729	28	12	26	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11778763--11778823	19	3.3	19	77	11	63	29	3	1	65	1.18
11778753--11778839	28	3.1	28	82	8	97	28	5	1	64	1.24
11778772--11778844	9	8.0	9	76	14	60	32	6	1	58	1.33
11778762--11778851	28	3.2	28	81	9	78	33	5	1	60	1.27
11778836--11778896	28	2.1	28	81	3	68	37	3	0	59	1.14
11779397--11779452	3	18.7	3	100	0	112	33	0	0	66	0.92
11782003--11782056	28	1.9	28	88	7	83	5	16	1	75	1.07
11782030--11782073	17	2.6	17	85	0	61	6	13	0	79	0.92
11782002--11782073	34	2.1	34	85	10	94	5	15	1	77	1.01
11782002--11782071	28	2.4	29	77	15	74	5	15	1	77	1.03
11782636--11782713	41	1.9	41	86	0	111	12	24	38	24	1.90
11784277--11784435	53	3.0	52	87	3	203	37	11	22	27	1.89
11784585--11784651	27	2.4	29	80	11	70	23	19	28	28	1.98
11787829--11787857	15	1.9	15	100	0	58	24	27	6	41	1.80
11788670--11788702	16	2.0	17	88	5	50	48	0	3	48	1.17
11788828--11788865	15	2.5	15	86	0	58	55	0	0	44	0.99
11788825--11788878	11	4.5	12	79	20	60	53	0	0	46	1.00
11796089--11796131	21	2.0	22	90	4	70	30	34	23	11	1.90
11798220--11798258	2	19.0	2	94	5	69	48	2	0	48	1.15
11804449--11804524	37	2.1	37	97	0	143	27	11	27	32	1.92
11805910--11806365	228	2.0	228	90	0	716	26	15	23	34	1.94
11808286--11808318	17	1.9	17	100	0	66	48	0	9	42	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11810030--11810071	17	2.4	18	77	18	52	59	0	4	35	1.19
11816834--11816859	11	2.4	11	100	0	52	38	7	0	53	1.30
11816816--11816928	39	2.8	41	82	9	144	35	3	0	61	1.14
11816857--11816917	9	6.4	9	74	23	54	32	1	0	65	1.02
11825044--11825261	108	2.0	108	97	0	409	33	11	14	39	1.83
11825781--11825856	14	4.9	15	71	20	50	43	15	9	31	1.79
11825797--11825836	20	2.0	20	90	0	62	50	12	10	27	1.72
11825785--11825851	34	1.9	35	90	3	109	46	13	8	31	1.74
11836772--11836823	26	2.0	26	96	0	95	48	7	13	30	1.71
11849492--11849572	41	2.0	41	97	0	153	48	14	7	29	1.71
11852662--11852695	17	1.9	18	88	5	52	50	5	29	14	1.67
11853443--11853514	35	2.1	35	97	0	135	55	13	15	15	1.69
11854880--11854922	2	21.5	2	100	0	86	48	0	0	51	1.00
11859698--11859750	24	2.2	23	80	12	63	62	0	5	32	1.19
11859701--11859754	21	2.3	24	87	12	78	61	0	7	31	1.24
11867631--11867679	23	2.1	23	100	0	98	24	18	20	36	1.94
11868493--11868523	2	16.0	2	93	6	55	0	48	0	51	1.00
11878156--11878192	2	18.5	2	100	0	74	48	0	0	51	1.00
11892430--11892489	3	20.7	3	76	6	61	33	5	1	60	1.29
11893005--11893445	108	4.1	107	89	3	661	31	15	17	34	1.92
11893005--11893445	218	2.0	214	89	3	679	31	15	17	34	1.92
11894365--11894399	16	2.2	16	94	0	61	20	17	20	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11903890--11904086	107	1.8	108	81	3	245	26	17	11	44	1.82
11905129--11905328	44	4.6	43	68	10	104	30	20	21	28	1.98
11905055--11905336	130	2.2	130	97	0	528	29	19	24	27	1.98
11905956--11905993	19	2.0	20	85	10	53	65	10	10	13	1.47
11906901--11906964	31	2.1	31	83	11	80	37	10	3	48	1.54
11907795--11907873	34	2.3	35	89	8	128	30	1	2	65	1.13
11922519--11922544	11	2.4	11	100	0	52	61	0	0	38	0.96
11922528--11922562	17	2.1	17	88	0	52	62	0	0	37	0.95
11934759--11934849	34	2.7	34	86	8	114	42	1	14	41	1.52
11934759--11934863	34	3.1	33	77	13	106	44	0	13	40	1.50
11934989--11935326	126	2.7	126	89	2	493	36	17	18	28	1.93
11938789--11938832	18	2.4	18	92	0	70	43	9	27	20	1.82
11940335--11940367	15	2.1	16	88	5	50	69	0	0	30	0.88
11943317--11943367	26	2.0	26	92	0	84	17	25	33	23	1.96
11943510--11943656	43	3.5	40	73	9	134	23	14	26	35	1.94
11943485--11943656	42	4.1	43	72	10	133	22	15	26	36	1.93
11943485--11943662	85	2.1	84	90	1	284	22	16	25	35	1.94
11945886--11946256	104	3.6	103	93	1	609	19	20	29	30	1.97
11948834--11949599	397	1.9	396	81	5	920	35	13	17	34	1.88
11950338--11950471	63	2.1	66	90	6	213	44	5	20	29	1.73
11950398--11950511	51	2.2	51	90	3	176	42	6	21	29	1.76
11952873--11952915	20	2.2	20	88	12	63	6	23	0	69	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11958750--11958774	2	12.5	2	100	0	50	0	48	0	52	1.00
11971553--11972138	150	4.0	148	88	3	840	22	25	19	32	1.97
11973807--11973863	28	1.9	29	83	16	73	59	1	35	3	1.25
11991234--11991290	27	2.1	27	86	0	78	21	15	29	33	1.94
11998679--11998724	18	2.7	18	80	6	60	50	0	0	50	1.00
11998687--11998716	13	2.3	13	94	0	51	50	0	0	50	1.00
12000270--12000320	9	5.4	9	79	9	57	39	0	0	60	0.97
12001896--12001943	19	2.6	19	86	3	71	39	2	10	47	1.49
12007137--12007185	21	2.3	21	79	6	55	48	0	0	51	1.00
12007590--12007672	41	2.0	41	92	0	139	56	3	4	34	1.38

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