genome.fa.s2.2.7.7.80.10.50.1000.153.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  153  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)
46366642--46366690	15	3.5	14	89	10	66	14	16	0	69	1.19
46367208--46367284	7	10.4	7	75	25	54	2	14	1	81	0.86
46367208--46367283	6	12.5	6	76	15	59	2	14	1	81	0.86
46367237--46367277	15	2.8	14	85	10	55	0	19	0	80	0.71
46368037--46368064	4	7.0	4	100	0	56	50	0	25	25	1.50
46373317--46373881	126	4.5	125	87	2	767	30	22	16	30	1.96
46374001--46374038	9	4.2	9	89	0	58	57	26	0	15	1.38
46374001--46374038	18	2.1	18	100	0	76	57	26	0	15	1.38
46374129--46374205	40	1.9	40	91	0	127	23	28	25	22	1.99
46374608--46374669	27	2.3	26	91	8	99	45	3	1	50	1.27
46375001--46375029	5	5.8	5	100	0	58	58	0	0	41	0.98
46374963--46375034	33	2.2	34	80	12	87	45	0	2	51	1.15
46380122--46380178	4	14.2	4	100	0	114	24	0	24	50	1.49
46383009--46383053	22	2.0	22	83	8	56	42	2	0	55	1.12
46385572--46385597	6	4.3	6	100	0	52	0	50	0	50	1.00
46393844--46393891	21	2.3	21	82	7	62	31	41	20	6	1.77
46393854--46393905	21	2.5	22	75	12	56	28	42	23	5	1.77
46396337--46396851	252	2.0	256	81	4	621	40	10	11	37	1.76
46398419--46398586	47	3.5	47	80	4	194	32	15	25	26	1.96
46399591--46399639	21	2.3	21	82	0	62	16	40	22	20	1.91
46401415--46401453	18	2.2	18	100	0	78	48	20	5	25	1.70
46410397--46410444	25	1.9	25	86	0	69	22	27	20	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46410455--46410541	25	3.5	25	80	3	104	20	26	21	31	1.98
46420018--46420048	15	2.1	15	100	0	62	19	22	6	51	1.69
46423996--46424366	125	3.0	124	87	2	532	30	10	21	37	1.87
46424633--46424710	26	2.9	26	77	11	86	30	17	25	25	1.97
46425286--46425331	12	3.4	14	80	16	53	28	0	13	58	1.35
46427233--46427298	26	2.5	26	85	7	89	25	21	28	24	1.99
46433082--46433218	54	2.5	53	82	3	157	43	2	27	26	1.66
46433129--46433234	54	2.0	54	84	3	142	44	0	29	25	1.61
46433652--46433697	3	15.3	3	100	0	92	32	0	0	67	0.91
46435524--46435570	18	2.6	18	86	10	60	57	4	0	38	1.18
46436352--46436381	15	2.0	15	100	0	60	33	20	20	26	1.97
46447307--46447702	43	9.3	43	81	1	404	28	28	16	26	1.97
46447971--46448056	43	2.0	43	88	0	127	45	10	10	33	1.73
46452514--46452635	7	16.6	7	71	15	77	37	38	1	22	1.64
46453078--46453343	41	6.5	41	85	0	336	33	26	19	20	1.96
46467007--46467045	11	3.5	11	92	0	60	25	2	41	30	1.69
46467447--46467505	28	2.2	26	84	6	73	52	1	3	42	1.28
46467823--46467931	52	2.1	52	85	0	146	20	22	12	44	1.85
46475628--46475656	15	1.9	15	100	0	58	27	34	3	34	1.74
46484585--46484654	25	2.8	25	82	0	86	30	24	21	24	1.99
46488884--46488935	24	2.2	24	82	0	59	50	7	7	34	1.60
46489606--46489643	20	1.9	20	88	0	58	42	5	5	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46493840--46493880	3	14.0	3	94	5	75	68	0	0	31	0.90
46493991--46494019	12	2.3	13	94	5	51	72	0	0	27	0.85
46500272--46500318	18	2.7	18	86	3	69	72	12	0	14	1.13
46500279--46500318	6	6.7	6	91	0	62	72	12	0	15	1.12
46500310--46500348	12	3.1	12	82	10	51	82	5	12	0	0.83
46500315--46500352	13	2.7	15	84	15	55	81	2	15	0	0.80
46500749--46500787	21	1.9	21	89	5	62	69	0	15	15	1.20
46501982--46502252	87	3.1	87	87	1	384	28	23	25	22	1.99
46502609--46504144	141	10.9	141	92	0	2464	33	18	20	26	1.96
46503009--46503093	44	1.9	44	90	0	134	31	23	18	25	1.97
46503294--46503382	44	2.0	44	86	0	124	31	23	21	23	1.98
46503435--46503523	44	2.0	44	82	0	106	30	20	22	26	1.98
46502609--46504137	565	2.7	565	92	0	2517	33	18	20	26	1.96
46503859--46504088	44	5.0	44	72	14	171	32	21	21	24	1.98
46504015--46504099	44	2.0	44	85	2	118	31	21	21	25	1.98
46502609--46504144	424	3.6	423	92	0	2493	33	18	20	26	1.96
46508533--46508573	17	2.4	17	87	0	55	63	0	9	26	1.25
46509655--46509727	35	2.1	35	87	5	103	50	2	10	35	1.52
46511324--46511391	27	2.5	28	92	2	111	13	36	16	33	1.87
46511527--46511883	182	2.0	182	89	0	552	31	19	17	31	1.95
46512261--46512839	123	4.6	123	77	8	599	26	24	16	32	1.96
46512510--46512610	51	2.0	51	84	0	130	29	19	16	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46512694--46512839	72	2.0	72	84	2	186	25	26	14	34	1.94
46512390--46513008	260	2.4	260	86	1	846	27	23	16	31	1.96
46512766--46512865	51	2.0	51	87	0	146	32	24	14	30	1.94
46513004--46513481	132	3.6	132	87	2	690	24	24	20	30	1.99
46513412--46513507	44	2.2	44	86	0	138	27	27	15	30	1.96
46517338--46518004	88	7.6	88	85	1	699	28	23	20	28	1.99
46523118--46523153	3	12.0	3	100	0	72	66	0	0	33	0.92
46523284--46523335	26	2.0	26	100	0	104	38	23	11	26	1.89
46524777--46524834	22	2.6	22	81	7	64	41	17	5	36	1.72
46525754--46525822	27	2.6	28	73	15	65	27	24	13	34	1.92
46525850--46525933	27	3.1	26	84	3	96	27	30	16	25	1.97
46527534--46527607	22	3.4	22	78	14	98	18	21	14	44	1.86
46529960--46530372	204	2.0	204	98	0	799	36	26	7	29	1.83
46530422--46530553	65	2.0	65	95	0	237	34	26	9	29	1.89
46531470--46531565	50	1.9	49	91	2	156	25	22	7	44	1.78
46535747--46535806	28	2.1	28	100	0	120	13	16	3	66	1.37
46535745--46535815	28	2.7	26	87	10	83	14	16	2	66	1.37
46536835--46537102	27	9.9	27	76	9	230	23	23	12	41	1.88
46536837--46537102	81	3.3	78	78	9	259	22	23	12	41	1.88
46549399--46549433	15	2.3	15	100	0	70	34	11	0	54	1.37
46549892--46549978	44	2.0	44	97	0	165	42	13	5	37	1.69
46550788--46550832	21	2.1	22	83	4	56	57	0	4	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46550957--46551006	10	4.8	10	81	18	57	60	4	0	36	1.16
46554041--46554082	22	2.0	22	86	13	63	54	0	0	45	0.99
46554044--46554077	16	2.2	15	89	5	50	55	0	0	44	0.99
46559698--46559769	37	1.9	37	97	0	135	55	18	12	13	1.69
46568844--46568974	61	2.2	57	87	5	181	51	3	3	40	1.38
46574636--46574666	2	15.5	2	100	0	62	48	0	0	51	1.00
46575169--46575233	29	2.2	30	83	5	80	27	7	3	61	1.38
46579844--46579917	32	2.3	32	88	0	103	32	14	25	27	1.95
46591007--46591031	7	3.6	7	100	0	50	40	0	0	60	0.97
46591159--46591197	15	2.8	14	88	7	53	66	0	0	33	0.92
46593531--46593574	23	1.9	23	85	0	61	40	0	2	56	1.11
46594226--46594254	12	2.3	13	94	5	51	10	10	0	79	0.94
46599283--46599316	17	2.0	17	88	11	52	76	0	11	11	1.02
46601623--46601729	32	3.3	32	90	0	160	29	17	18	33	1.94
46601938--46601989	22	2.3	23	90	6	88	53	19	3	23	1.61
46604625--46604739	43	2.7	43	77	0	140	26	20	17	34	1.95
46618671--46618706	15	2.4	15	90	0	54	16	8	5	69	1.33
46619427--46619877	44	9.8	44	73	14	284	25	21	21	31	1.98
46619368--46619804	142	3.1	142	93	0	730	26	21	19	32	1.97
46619889--46619988	44	2.3	44	77	3	103	24	20	20	36	1.95
46623545--46623594	24	2.1	24	100	0	100	34	12	24	30	1.91
46632336--46632385	19	2.6	19	83	3	64	54	6	4	36	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46641196--46641401	103	2.0	103	91	1	333	20	15	26	37	1.92
46642395--46642443	18	2.8	17	82	17	57	32	0	22	44	1.53
46645887--46645934	22	2.2	23	92	7	82	54	0	2	43	1.12
46647209--46647240	13	2.3	15	89	10	50	0	12	9	78	0.97
46647444--46647487	22	2.1	21	87	8	63	56	0	29	13	1.38
46662751--46662818	28	2.5	28	90	2	102	27	22	25	25	1.99
46662913--46662967	26	2.1	26	82	0	65	38	21	20	20	1.94
46663155--46663500	27	12.9	27	78	2	340	15	17	21	45	1.85
46670416--46670477	28	2.2	28	88	0	88	25	22	27	24	2.00
46670812--46670984	81	2.1	81	88	2	249	15	22	18	43	1.87

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