genome.fa.s13.2.7.7.80.10.50.1000.99.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  99  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)
30177129--30177181	25	2.1	25	86	6	72	39	1	0	58	1.09
30181829--30181913	42	2.0	42	97	0	161	28	17	14	40	1.88
30188793--30188902	46	2.4	47	74	11	111	49	25	4	20	1.68
30189296--30189524	29	7.9	29	72	9	162	21	27	14	36	1.92
30189296--30189521	87	2.6	87	83	4	287	21	26	14	36	1.92
30192412--30192455	23	2.0	23	90	4	72	38	15	22	22	1.92
30192676--30192714	16	2.5	15	80	8	51	38	5	5	51	1.46
30202051--30202083	11	2.8	12	90	9	50	69	3	0	27	1.03
30204570--30204611	21	2.0	21	90	4	68	28	14	21	35	1.92
30210037--30210101	32	2.1	32	94	2	114	46	12	10	30	1.76
30219987--30220060	28	2.6	28	91	0	121	32	27	20	20	1.97
30220407--30220521	27	4.3	27	81	0	122	20	15	22	40	1.90
30235124--30235340	27	8.1	27	84	3	258	40	23	18	17	1.91
30235124--30235340	80	2.7	81	84	5	287	40	23	18	17	1.91
30235451--30235513	26	2.4	26	89	0	90	23	20	20	34	1.96
30235451--30235531	26	3.1	25	82	7	63	24	19	20	34	1.96
30245400--30245438	15	2.6	15	92	8	62	12	12	0	74	1.08
30246063--30246116	28	1.9	28	100	0	108	42	11	14	31	1.81
30246814--30246861	20	2.3	21	82	13	64	81	6	0	12	0.87
30246892--30246940	6	8.7	6	83	16	61	67	2	0	30	1.02
30246892--30246940	11	4.3	12	82	17	61	67	2	0	30	1.02
30254222--30254538	158	2.0	158	96	0	589	33	5	20	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30264756--30264780	5	5.0	5	100	0	50	60	0	0	40	0.97
30269048--30269110	25	2.6	25	75	9	60	38	12	15	33	1.86
30299415--30299452	19	2.0	20	94	5	69	21	15	7	55	1.66
30306619--30306699	40	2.0	41	85	7	112	28	25	20	24	1.99
30307137--30307170	18	1.9	18	88	5	52	14	41	26	17	1.88
30311134--30311168	18	1.9	18	88	0	52	28	28	2	40	1.71
30312622--30312761	66	2.1	66	90	2	228	30	17	21	30	1.96
30312622--30312741	33	3.6	33	87	0	186	29	19	22	29	1.98
30319619--30321420	620	2.9	618	92	1	2972	38	12	11	37	1.80
30325243--30325267	2	12.5	2	100	0	50	0	48	0	52	1.00
30327963--30328002	19	2.1	19	85	0	53	60	2	7	30	1.38
30327997--30328034	20	1.9	20	94	0	67	73	2	10	13	1.19
30335622--30335678	30	1.9	30	82	13	73	47	3	0	49	1.18
30335852--30335904	13	4.1	13	82	0	70	37	26	7	28	1.83
30339779--30339845	33	2.0	34	85	8	93	23	20	26	28	1.99
30339814--30339905	28	3.2	28	83	7	123	28	21	22	27	1.99
30339780--30339905	28	4.2	29	77	11	121	26	21	23	27	1.99
30340237--30340384	27	5.5	27	84	5	174	19	19	18	42	1.89
30349390--30349458	31	2.2	31	94	0	120	34	4	24	36	1.76
30350060--30350127	34	2.0	34	85	5	93	20	26	23	29	1.99
30356801--30356860	16	3.7	16	77	4	66	21	13	18	46	1.83
30369089--30369291	102	2.0	102	91	1	327	21	19	28	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30369191--30369371	75	2.4	76	88	1	256	22	18	28	30	1.97
30371499--30371563	30	2.3	27	86	7	85	53	0	1	44	1.09
30371499--30371563	27	2.3	26	84	12	76	53	0	1	44	1.09
30372007--30372048	10	4.3	10	80	17	52	73	0	9	16	1.08
30373092--30373152	23	2.7	23	92	2	97	19	24	22	32	1.97
30373322--30373364	12	3.6	12	84	9	61	37	0	23	39	1.55
30379760--30379801	10	4.3	10	80	17	52	73	0	9	16	1.08
30380827--30380893	23	3.0	23	93	2	109	20	23	22	32	1.98
30381060--30381115	12	4.6	12	86	2	76	37	0	23	39	1.55
30390986--30391022	15	2.5	15	90	0	56	37	18	2	40	1.65
30396330--30396442	28	4.0	28	91	2	174	32	23	21	22	1.98
30397677--30397766	28	3.2	28	90	0	135	31	24	21	23	1.98
30398081--30398129	24	2.0	24	100	0	98	24	12	8	55	1.64
30400610--30400635	12	2.2	12	100	0	52	46	7	15	30	1.74
30405314--30405372	25	2.4	24	81	18	68	33	20	22	23	1.97
30412745--30412777	16	2.0	17	94	5	59	33	18	6	42	1.75
30412951--30413017	24	2.7	24	86	4	80	26	22	17	32	1.96
30426268--30426449	33	5.4	33	71	18	142	20	20	25	32	1.97
30426236--30426422	102	1.8	102	90	0	302	21	20	26	31	1.98
30430816--30430973	84	1.9	84	81	7	196	30	20	23	25	1.99
30430769--30431025	128	2.0	128	95	0	460	30	19	24	25	1.98
30430897--30431380	172	2.8	172	93	0	824	30	20	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30430774--30431096	128	2.5	127	86	5	373	30	20	24	25	1.99
30430774--30431145	128	2.9	126	81	7	349	30	19	24	25	1.98
30431243--30431603	131	2.8	131	90	0	553	30	20	22	26	1.98
30430772--30431597	44	19.1	44	67	13	304	31	19	23	25	1.98
30436081--30436105	5	5.0	5	100	0	50	0	60	40	0	0.97
30436235--30436281	20	2.3	20	100	0	94	8	19	19	53	1.70
30442931--30443030	33	3.0	33	88	0	146	30	20	21	29	1.98
30445141--30445311	90	1.9	90	82	5	213	32	15	11	40	1.82
30445298--30445765	79	5.9	79	82	5	491	32	16	12	38	1.86
30445293--30445721	237	1.8	239	86	4	625	33	16	13	37	1.87
30445746--30445916	86	2.0	87	82	1	209	33	8	13	43	1.75
30445830--30445991	74	2.2	76	83	8	199	33	7	13	45	1.72
30454316--30454654	51	6.7	51	76	9	311	28	15	26	29	1.96
30454316--30454657	102	3.4	102	81	7	385	28	15	26	29	1.96
30460838--30461180	51	6.8	51	75	10	312	27	15	27	30	1.96
30460838--30461179	102	3.4	101	79	10	369	27	15	27	30	1.96
30466209--30466276	27	2.4	27	82	4	82	52	16	4	26	1.62
30467093--30467146	28	1.9	28	88	0	81	29	18	24	27	1.98
30467426--30467503	32	2.5	32	85	2	104	38	19	20	21	1.94
30467645--30467774	24	5.4	24	70	7	93	46	25	5	23	1.73
30467645--30467769	48	2.6	48	78	7	130	46	25	5	22	1.73
30467683--30467777	24	4.0	24	80	0	109	44	23	5	27	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30467771--30468102	27	12.3	27	79	5	210	28	19	18	33	1.96
30467797--30468102	54	5.7	54	78	6	269	28	19	18	33	1.95
30467768--30468088	81	4.0	81	73	9	242	28	19	18	32	1.96
30468431--30468461	12	2.6	12	100	0	62	32	45	16	6	1.72
30471288--30471579	43	6.9	43	74	12	237	23	16	25	34	1.95
30471293--30471579	85	3.4	85	87	2	389	23	16	25	34	1.95
30473769--30473846	34	2.3	33	78	14	79	32	19	20	28	1.97
30474312--30474637	27	12.1	27	82	0	346	19	19	21	40	1.92
30483288--30483334	11	4.5	11	78	7	53	21	0	2	76	0.89
30483277--30483330	19	2.8	19	83	10	58	22	0	3	74	0.98
30483285--30483335	18	2.7	20	82	11	63	21	0	3	74	0.98
30483500--30483549	13	3.8	13	78	7	57	4	8	10	78	1.09
30491295--30491357	30	2.1	30	100	0	126	34	12	14	38	1.84
30496510--30496618	31	3.5	31	72	6	85	22	27	32	18	1.97
30496763--30496795	12	2.8	12	90	9	50	45	9	9	36	1.68
30500083--30500134	27	1.9	27	92	0	86	50	3	15	30	1.62
30507074--30507137	20	3.2	20	71	4	65	20	31	12	35	1.90
30507054--30507164	41	2.7	41	85	2	152	21	28	14	35	1.93
30510444--30510740	50	5.8	50	83	3	319	27	21	27	22	1.99
30519411--30519498	46	1.9	46	97	0	167	39	15	21	22	1.91
30522243--30522315	27	2.7	27	95	2	128	35	8	20	35	1.83
30524776--30524825	20	2.8	17	82	17	57	72	6	0	22	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30530463--30531383	132	7.0	131	95	0	1592	29	25	16	28	1.97
30530463--30531383	263	3.5	264	94	1	1598	29	25	16	28	1.97
30538139--30538171	12	2.8	12	95	0	57	3	12	42	42	1.57
30544484--30544537	24	2.2	24	100	0	108	27	14	7	50	1.70
30552485--30552630	73	2.0	73	98	0	283	30	12	23	32	1.92
30557603--30557741	22	6.3	22	89	0	197	27	26	14	31	1.95
30563195--30563314	62	1.9	62	84	3	161	43	5	3	48	1.41
30564216--30564255	21	1.9	21	85	10	55	30	2	0	67	1.04
30573559--30573591	11	2.8	12	86	13	50	57	0	0	42	0.98
30573572--30573604	16	2.0	17	88	5	50	66	3	0	30	1.06

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