genome.fa.s2.2.7.7.80.10.50.1000.54.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  54  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)
15167170--15167232	25	2.5	25	100	0	126	41	23	22	12	1.88
15172661--15172708	26	2.0	23	84	12	60	58	2	0	39	1.10
15176627--15176667	4	10.2	4	89	10	66	75	0	0	24	0.80
15179217--15179312	35	2.7	36	74	7	90	31	16	26	26	1.97
15179387--15179464	33	2.4	32	81	10	86	33	14	23	29	1.93
15179250--15179512	101	2.6	101	84	2	325	30	15	25	28	1.96
15180179--15180204	5	5.2	5	100	0	52	42	19	19	19	1.90
15181228--15181264	9	4.1	9	92	0	65	29	10	13	45	1.77
15181318--15181348	9	3.4	9	90	0	53	38	22	12	25	1.90
15184980--15185090	43	2.6	43	78	7	118	30	28	17	23	1.97
15188625--15188654	15	2.0	15	93	0	51	36	6	16	40	1.75
15188754--15188853	49	2.0	50	84	1	130	38	29	7	26	1.82
15192593--15192620	13	2.2	13	100	0	56	50	0	7	42	1.30
15197177--15197202	11	2.4	11	100	0	52	38	7	0	53	1.30
15197161--15197304	38	3.5	39	75	20	150	32	2	0	64	1.08
15197216--15197283	10	6.9	10	73	20	54	36	1	0	61	1.05
15197188--15197281	48	1.9	49	97	2	181	35	2	0	62	1.07
15197233--15197294	14	4.6	14	69	25	53	33	3	0	62	1.11
15197208--15197298	39	2.3	39	90	1	137	32	2	0	64	1.05
15197200--15197238	8	4.8	8	83	3	51	28	0	0	71	0.86
15197199--15197299	48	2.1	45	84	14	123	31	1	0	66	1.03
15197169--15197317	28	4.9	31	69	21	102	35	2	0	61	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15197254--15197324	33	2.2	31	80	5	88	38	1	0	60	1.06
15197161--15197316	87	1.8	85	90	6	255	33	2	0	63	1.08
15214859--15214903	21	2.0	24	87	12	69	66	0	2	31	1.04
15220295--15220338	20	2.1	21	87	4	63	27	2	0	70	0.99
15220295--15220343	21	2.4	20	86	3	62	28	2	2	67	1.13
15223775--15223807	5	6.4	5	93	6	57	0	39	0	60	0.97
15223771--15223807	16	2.3	16	95	0	65	0	40	0	59	0.97
15225905--15226157	126	2.0	126	99	0	497	26	18	24	29	1.98
15229666--15229729	30	2.1	31	88	2	94	48	12	15	23	1.79
15243604--15243633	15	2.0	15	93	0	51	63	0	3	33	1.11
15244934--15244972	21	1.9	20	84	5	51	58	2	5	33	1.33
15246186--15246379	98	2.0	97	92	1	325	36	24	10	29	1.88
15247830--15247942	19	5.8	19	87	4	172	38	15	8	37	1.78
15247830--15247941	40	2.8	40	94	2	192	39	14	8	37	1.77
15247823--15247942	59	2.1	56	90	6	188	39	15	8	37	1.77
15248980--15249008	3	10.0	3	92	7	51	65	0	34	0	0.93
15249039--15249077	20	2.0	20	85	10	53	64	2	30	2	1.21
15252369--15252462	49	1.9	49	86	0	134	42	9	25	22	1.83
15253357--15253431	23	3.3	23	90	0	105	26	24	14	34	1.94
15254282--15254390	19	5.6	19	84	4	155	38	11	15	34	1.83
15254284--15254390	40	2.7	39	92	2	171	39	11	14	34	1.82
15255029--15255072	23	1.9	23	90	0	70	29	9	4	56	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15261648--15261887	69	3.5	68	78	4	216	19	20	21	39	1.93
15265263--15265299	17	2.1	18	85	14	51	70	2	2	24	1.14
15271521--15271552	16	2.1	15	94	5	55	12	3	0	84	0.74
15272231--15272293	25	2.5	25	86	0	90	23	9	15	50	1.73
15274476--15274548	38	1.9	37	86	8	103	31	19	1	47	1.58
15274649--15274970	45	7.2	45	89	2	443	34	26	17	22	1.96
15287435--15287501	28	2.5	26	73	20	64	43	0	1	55	1.09
15289273--15289302	6	5.0	6	95	0	51	13	50	16	20	1.78
15299021--15299089	27	2.6	27	86	4	95	17	34	28	18	1.94
15299142--15299292	10	15.9	10	71	22	87	69	0	30	0	0.89
15299141--15299318	38	4.8	38	85	6	206	68	0	31	0	0.90
15299142--15299318	10	18.0	10	65	16	84	68	0	31	0	0.89
15299648--15300164	158	3.3	158	75	13	583	51	6	10	30	1.63
15300160--15300253	43	2.1	44	82	11	111	52	3	13	30	1.57
15301954--15301991	12	3.2	12	92	0	67	28	44	26	0	1.54
15305464--15305598	40	3.2	40	78	13	139	50	12	4	32	1.60
15305754--15305789	10	3.5	10	88	3	54	0	27	0	72	0.85
15305953--15305991	19	2.1	19	85	9	53	7	2	7	82	0.94
15307743--15307782	16	2.6	16	88	7	57	25	5	0	70	1.08
15312605--15312664	30	2.0	30	96	0	111	56	15	3	25	1.54
15322604--15322664	25	2.4	25	78	8	61	44	26	8	21	1.80
15329471--15329542	36	2.0	36	100	0	144	44	27	0	27	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15330513--15330542	2	15.0	2	100	0	60	50	0	50	0	1.00
15331078--15331103	3	8.7	3	100	0	52	69	0	0	30	0.89
15331666--15331692	3	9.0	3	100	0	54	33	0	0	66	0.92
15335717--15335843	61	2.1	61	98	1	247	32	7	20	39	1.81
15335871--15335974	39	2.7	39	77	8	106	26	6	23	43	1.78
15339673--15340215	69	7.9	69	74	4	317	19	21	24	34	1.96
15339647--15340211	138	4.1	137	75	6	424	20	20	24	34	1.96
15353553--15353645	44	2.1	44	96	2	170	48	11	9	30	1.72
15357322--15357418	31	3.3	31	70	24	91	50	19	11	18	1.77
15358588--15358654	30	2.2	30	82	10	75	35	26	4	32	1.77
15364480--15364610	63	2.1	61	92	4	219	23	9	15	51	1.71
15365210--15365587	195	1.9	196	87	3	557	39	8	16	35	1.80
15368585--15368634	23	2.1	24	88	3	75	58	2	0	40	1.10
15378170--15378278	37	2.9	36	84	8	121	17	16	30	35	1.92
15378152--15378311	37	4.3	35	81	7	113	16	15	30	38	1.89
15385841--15385924	24	3.5	24	68	22	68	40	1	2	55	1.20
15386112--15386146	16	2.2	16	94	0	61	25	31	5	37	1.80
15388570--15388606	17	2.1	18	85	14	51	54	0	2	43	1.14
15393471--15393613	45	3.2	44	77	5	144	30	20	24	24	1.98
15393485--15393643	45	3.5	45	73	9	126	32	20	22	25	1.98
15403672--15403834	86	1.9	86	85	0	227	27	21	18	32	1.97
15403672--15403834	43	3.8	43	83	1	166	27	21	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15403710--15403963	86	3.0	83	79	8	244	28	18	21	31	1.97
15403708--15403963	43	6.0	43	79	8	209	28	18	21	31	1.97
15404255--15404385	66	2.0	66	83	3	165	12	25	18	42	1.86
15408345--15408565	27	8.2	27	82	1	246	42	22	16	17	1.88
15408345--15408567	81	2.8	81	86	2	315	42	22	17	17	1.89
15417391--15417536	42	3.5	43	78	6	131	18	37	21	22	1.94
15417565--15417697	61	2.2	61	95	0	239	23	32	21	23	1.98
15417591--15417713	61	2.0	61	88	0	183	21	34	21	22	1.97
15422730--15422852	61	2.0	61	93	0	210	21	34	23	20	1.96
15447455--15447486	11	2.9	11	95	0	55	53	9	3	34	1.49
15452580--15452723	72	2.0	72	97	0	270	40	13	22	22	1.89
15452891--15452930	21	1.9	21	85	10	55	32	5	7	55	1.50
15455338--15455378	20	2.0	20	100	0	82	31	24	9	34	1.88
15459527--15459566	20	2.0	20	90	0	62	27	10	12	50	1.72
15459512--15459578	34	1.9	35	90	3	109	31	8	13	46	1.74
15459506--15459582	14	5.0	15	71	20	52	33	9	14	42	1.77
15463954--15464177	32	7.0	32	80	3	227	20	19	20	38	1.94
15463951--15464177	96	2.4	96	81	3	276	20	19	21	38	1.94
15469750--15469866	43	2.7	43	77	12	132	22	17	29	29	1.97
15470469--15470566	41	2.3	44	91	5	157	20	8	23	47	1.76
15470761--15470798	2	19.0	2	100	0	76	50	0	0	50	1.00
15471037--15471077	20	2.0	20	86	9	57	39	2	17	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15473279--15473312	17	1.9	18	88	5	52	35	23	0	41	1.55
15473797--15473849	8	6.1	8	81	14	61	58	1	0	39	1.09
15473966--15474047	25	3.0	26	70	21	62	56	3	1	39	1.25
15474010--15474050	7	6.1	7	81	18	52	60	0	0	39	0.96
15474010--15474049	20	2.1	19	95	4	71	60	0	0	40	0.97
15478842--15478891	24	2.1	23	85	10	66	40	10	4	46	1.56
15487614--15487645	12	2.6	13	85	14	50	50	0	15	34	1.45
15488084--15488122	20	2.0	20	85	10	53	43	7	0	48	1.31
15496732--15496776	2	22.5	2	100	0	90	51	0	0	48	1.00
15496988--15497164	41	4.3	41	88	5	268	27	21	28	22	1.99

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