genome.fa.s13.2.7.7.80.10.50.1000.52.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  52  of  199  ( 23770 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)
15283508--15284034	65	8.1	65	81	7	554	45	28	0	25	1.55
15285098--15285664	127	4.5	125	89	2	809	29	23	16	29	1.96
15289407--15289455	15	3.1	17	80	11	52	63	4	0	32	1.13
15289412--15289465	15	3.6	15	82	5	65	70	1	0	27	0.98
15290986--15291011	5	5.2	5	100	0	52	38	19	19	23	1.93
15290960--15291011	26	2.0	26	81	7	61	34	15	26	23	1.94
15291727--15291772	9	5.1	9	84	10	67	39	21	13	26	1.90
15291727--15291777	18	2.8	18	90	0	84	37	19	13	29	1.90
15300543--15300613	13	4.8	16	69	23	57	25	18	16	39	1.91
15300517--15300699	29	6.4	28	76	6	154	22	20	19	37	1.95
15300521--15300657	57	2.4	56	83	6	152	24	20	18	36	1.95
15300720--15300784	28	2.3	29	83	2	78	23	18	9	49	1.76
15313379--15313461	6	12.1	7	87	12	88	68	0	15	15	1.21
15314773--15314860	44	2.0	44	81	0	104	31	17	20	30	1.95
15314792--15315042	44	5.5	44	69	15	141	31	17	21	29	1.96
15314774--15315059	142	2.0	142	93	0	491	32	17	21	28	1.96
15315135--15315900	50	15.3	50	69	6	413	33	23	19	23	1.97
15315106--15315899	100	7.9	100	84	4	881	32	23	19	23	1.97
15322722--15322752	16	1.9	16	93	0	53	9	9	9	70	1.33
15323900--15323939	19	2.1	19	86	9	55	55	7	5	32	1.50
15324896--15324940	12	3.8	12	93	0	81	15	0	6	77	0.96
15324886--15324937	6	8.7	6	83	8	70	17	0	3	78	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15324886--15324946	24	2.5	24	87	10	88	14	0	6	78	0.94
15324886--15324957	12	6.2	11	79	9	65	15	0	6	77	0.96
15332105--15332143	18	2.2	18	86	4	53	10	12	5	71	1.28
15332498--15332540	22	2.0	22	81	9	52	53	0	4	41	1.21
15333052--15333078	2	13.5	2	100	0	54	48	0	0	51	1.00
15333206--15333244	12	3.3	12	85	7	62	41	2	7	48	1.45
15335718--15335790	37	2.0	37	83	5	94	27	23	15	34	1.94
15341289--15341326	20	2.0	20	89	5	60	31	18	26	23	1.97
15350001--15350042	22	1.9	22	85	9	59	30	2	16	50	1.58
15352513--15352554	21	1.9	23	85	9	61	50	21	4	23	1.68
15359787--15360022	121	2.0	119	88	3	357	27	16	18	38	1.91
15368672--15368716	22	2.0	22	95	0	81	48	15	13	22	1.79
15377199--15377239	21	2.0	21	85	0	55	29	2	31	36	1.71
15379187--15379278	36	2.5	36	89	5	132	18	14	29	38	1.90
15379178--15379291	37	3.1	37	81	8	135	17	13	29	39	1.88
15383831--15383887	26	2.2	27	75	12	66	57	7	1	33	1.36
15401457--15401574	62	2.0	61	84	5	159	50	3	4	41	1.38
15401568--15401655	25	3.4	25	72	19	74	53	2	2	42	1.26
15402491--15402521	16	1.9	16	93	0	53	74	9	6	9	1.23
15404478--15404584	28	3.8	28	92	0	178	24	22	24	28	1.99
15405461--15405507	24	1.9	24	86	4	67	36	0	38	25	1.56
15406599--15406706	28	3.9	28	92	0	180	23	22	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15406599--15406719	28	4.3	29	86	6	153	23	19	25	31	1.98
15420307--15420358	20	2.6	20	81	0	68	53	17	21	7	1.68
15421370--15421521	42	3.6	42	80	0	169	15	34	25	24	1.95
15430698--15430877	89	2.0	89	98	0	351	42	13	8	35	1.74
15433277--15433344	22	3.1	22	80	0	82	44	23	19	13	1.85
15436373--15436572	50	3.9	50	83	4	229	22	29	22	26	1.99
15436910--15436967	30	1.9	31	82	6	75	29	22	5	43	1.75
15446548--15446607	30	2.0	30	90	3	95	30	5	10	55	1.54
15447118--15447146	12	2.4	12	100	0	58	10	48	27	13	1.75
15452600--15452653	21	2.6	20	80	16	65	72	7	5	14	1.26
15454293--15454343	12	4.2	12	80	11	50	74	1	5	17	1.11
15454245--15454343	28	3.6	27	79	11	96	71	3	8	17	1.23
15454276--15454342	19	3.3	19	74	22	64	73	2	4	19	1.14
15455490--15455699	28	7.4	28	90	2	312	49	23	0	26	1.54
15455483--15455699	57	3.8	57	91	1	337	48	24	0	26	1.54
15455483--15455699	85	2.6	85	90	2	337	48	24	0	26	1.54
15455823--15455847	10	2.5	10	100	0	50	44	8	0	48	1.32
15468266--15468321	5	11.2	5	100	0	112	19	19	0	60	1.36
15469760--15469796	18	2.1	18	89	0	56	45	18	0	35	1.50
15472718--15472776	30	1.9	30	82	3	73	25	22	3	49	1.65
15473654--15473718	28	2.3	27	76	5	76	32	23	23	21	1.98
15474065--15474217	27	5.7	27	81	1	173	22	14	20	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15474065--15474217	53	2.9	54	80	3	166	22	14	20	41	1.89
15475299--15475328	2	15.0	2	100	0	60	50	0	0	50	1.00
15475360--15475545	41	4.5	41	94	0	318	24	27	22	26	2.00
15483822--15483886	27	2.4	27	85	7	80	36	21	23	18	1.95
15484022--15484256	27	8.7	26	80	6	209	26	15	17	40	1.89
15484006--15484256	54	4.6	55	80	8	273	26	15	17	39	1.90
15484006--15484256	82	3.1	82	84	2	319	26	15	17	39	1.90
15484030--15484256	81	2.8	82	81	4	289	26	15	17	40	1.89
15489173--15489198	6	4.3	6	100	0	52	30	0	0	69	0.89
15493598--15493637	21	1.9	21	94	0	71	10	17	12	60	1.59
15493597--15493644	21	2.3	20	86	10	69	8	16	12	62	1.53
15496724--15496785	28	2.2	29	82	2	72	27	16	14	41	1.87
15498098--15498144	16	3.0	16	79	14	53	80	4	0	14	0.85
15498225--15498275	26	1.9	27	92	4	86	39	41	5	13	1.69
15499605--15499654	2	25.0	2	100	0	100	50	0	0	50	1.00
15501916--15501993	28	2.8	28	80	7	95	32	10	1	56	1.41
15503382--15503415	18	1.9	18	88	5	52	50	0	8	41	1.34
15504592--15504630	19	2.0	19	85	5	51	35	5	0	58	1.20
15512814--15512860	22	2.1	23	84	11	62	63	4	2	29	1.25
15513327--15513523	109	1.8	109	87	4	299	37	18	13	30	1.89
15514170--15514211	18	2.3	18	88	8	59	64	2	4	28	1.26
15514952--15514992	21	2.1	19	90	9	64	41	4	0	53	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15519748--15519884	42	3.5	42	77	17	184	21	18	27	32	1.97
15519710--15519886	75	2.4	75	98	0	336	20	19	28	31	1.97
15519788--15519988	102	2.0	102	95	0	366	19	21	28	30	1.98
15523502--15523547	21	2.3	19	82	10	56	45	13	6	34	1.69
15529258--15529388	57	2.3	56	80	10	133	23	17	6	52	1.67
15536414--15536578	89	1.9	89	89	0	258	23	13	29	33	1.93
15552580--15552926	122	2.8	123	94	1	617	29	17	22	30	1.97
15553208--15553242	18	1.9	18	88	0	52	31	8	34	25	1.86
15553267--15553347	39	2.1	39	97	0	153	13	18	37	30	1.90
15553274--15553356	39	2.1	39	90	0	130	13	19	34	32	1.90
15555034--15555092	10	5.8	10	76	4	55	64	0	0	35	0.94
15555116--15555199	29	3.1	29	62	22	74	41	0	28	29	1.56
15555093--15555207	51	2.3	51	96	0	212	41	0	30	27	1.56
15557178--15557220	18	2.4	18	96	0	77	27	9	16	46	1.77
15557509--15557580	22	3.3	22	94	0	117	30	16	27	25	1.97
15569975--15570091	57	2.1	57	93	0	198	5	28	20	46	1.72
15570057--15570158	25	4.1	25	94	0	177	0	23	27	48	1.58
15570039--15570155	50	2.5	44	81	15	153	0	25	25	47	1.57
15569984--15570082	19	5.2	19	75	9	85	5	28	20	46	1.71
15572632--15572697	18	3.7	18	93	0	114	33	13	13	39	1.84
15573121--15573293	72	2.4	72	81	7	217	27	6	12	54	1.61
15575305--15575348	13	3.5	13	84	6	63	43	22	9	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15575963--15576009	23	2.0	23	87	8	67	57	4	0	38	1.18
15577359--15577399	13	2.9	14	77	22	50	41	0	0	58	0.98
15577359--15577395	15	2.3	17	86	13	60	37	0	0	62	0.96
15579200--15580229	37	28.1	37	79	4	941	33	20	16	30	1.94
15579200--15580229	73	14.0	73	80	5	915	33	20	16	30	1.94
15579200--15580107	110	8.3	109	84	3	990	33	19	16	30	1.94
15580059--15580203	78	1.9	78	85	2	202	33	18	17	30	1.94
15591590--15591668	27	2.8	28	81	11	90	27	5	3	63	1.33
15592621--15592671	24	2.1	24	88	0	75	52	5	3	37	1.44
15594998--15595049	20	2.9	17	73	15	50	25	0	7	67	1.17

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