genome.fa.s13.2.7.7.80.10.50.1000.103.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  103  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)
31270939--31270972	15	2.3	15	90	5	52	35	29	0	35	1.58
31271226--31271774	114	4.8	114	81	5	608	31	26	20	21	1.98
31271227--31271778	230	2.4	229	87	3	781	31	26	20	21	1.98
31272427--31272471	18	2.5	18	96	0	81	48	11	0	40	1.39
31272431--31272471	9	4.6	9	81	0	55	46	12	0	41	1.41
31272493--31272526	17	1.9	18	88	5	52	38	5	0	55	1.24
31272941--31273172	9	26.4	9	75	11	196	44	17	0	36	1.55
31278689--31278733	21	2.1	21	87	0	63	35	20	42	2	1.64
31279169--31279261	43	2.2	43	88	3	134	29	18	25	26	1.98
31279182--31279454	43	6.5	41	77	9	232	26	21	21	30	1.98
31280269--31280326	30	1.9	30	85	0	80	43	1	24	31	1.64
31280540--31280569	13	2.3	13	94	0	51	33	3	13	50	1.58
31280664--31280912	50	4.8	50	88	3	327	25	22	30	21	1.99
31282413--31282455	22	2.0	22	90	0	68	44	27	18	9	1.80
31282325--31282469	76	1.9	76	86	0	209	33	19	23	23	1.97
31283100--31283162	25	2.5	26	76	21	71	57	3	25	14	1.52
31284676--31284740	30	2.2	30	94	0	112	24	3	12	60	1.47
31285352--31285382	11	2.8	11	90	0	53	32	0	0	67	0.91
31285803--31285828	5	5.2	5	100	0	52	0	19	0	80	0.71
31289009--31289086	37	2.1	37	92	0	129	39	14	8	37	1.77
31289133--31289208	33	2.3	33	95	0	134	44	15	5	34	1.69
31292241--31292448	91	2.3	91	84	4	258	45	3	4	46	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31292502--31292832	66	5.4	63	66	22	220	42	3	5	48	1.42
31292464--31292902	120	3.7	120	94	1	758	42	2	4	49	1.38
31292589--31292640	15	3.6	15	80	12	56	44	0	1	53	1.11
31292709--31292760	15	3.6	15	80	12	56	44	0	1	53	1.11
31292829--31292880	15	3.6	15	80	12	56	44	0	1	53	1.11
31292834--31292917	41	2.0	42	86	9	118	44	1	3	51	1.26
31293102--31293234	66	2.0	66	100	0	266	33	28	7	30	1.85
31293202--31293251	16	3.1	16	94	0	82	36	34	4	26	1.75
31293292--31293353	30	2.1	30	87	0	88	58	9	4	27	1.50
31293335--31293360	12	2.2	12	100	0	52	76	0	0	23	0.78
31296832--31297039	100	2.0	100	89	6	317	55	7	8	28	1.58
31296830--31296993	50	3.1	50	68	13	132	55	6	9	28	1.57
31303227--31303548	46	7.0	46	88	1	448	47	16	11	24	1.79
31304158--31304330	43	4.0	43	76	8	138	32	26	16	24	1.96
31304158--31304322	86	1.9	85	81	8	201	32	26	16	24	1.96
31311191--31311269	25	3.3	25	75	7	83	24	26	12	36	1.91
31311191--31311299	47	2.3	48	76	13	118	23	23	12	39	1.90
31319839--31319889	20	2.5	20	84	9	77	35	21	29	13	1.92
31323636--31323684	16	2.9	17	84	9	64	40	2	0	57	1.10
31323635--31323720	16	5.1	16	76	19	61	40	1	0	58	1.06
31323635--31323713	17	4.8	16	72	15	72	40	1	0	58	1.06
31325698--31325773	16	4.6	16	68	24	50	35	0	30	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31329788--31329817	2	15.0	2	100	0	60	50	0	0	50	1.00
31331534--31331560	2	13.5	2	100	0	54	51	0	0	48	1.00
31334483--31334543	22	2.8	22	78	9	63	37	6	9	45	1.63
31334992--31335039	20	2.3	21	79	10	55	37	4	10	47	1.57
31335323--31335385	21	3.0	21	88	2	90	30	3	33	33	1.74
31336516--31336574	30	2.0	30	83	6	75	28	15	25	30	1.96
31338438--31338493	21	2.7	21	91	0	94	25	8	37	28	1.86
31350564--31350612	25	2.0	25	95	0	89	36	18	28	16	1.92
31350701--31350791	25	3.6	25	76	8	69	38	18	23	19	1.93
31351205--31351246	21	2.0	21	85	0	57	40	21	0	38	1.53
31355486--31355516	16	1.9	16	93	0	53	19	12	25	41	1.87
31370008--31370056	17	2.6	18	81	15	55	42	2	8	46	1.45
31371469--31371852	128	3.0	128	97	1	709	33	5	18	42	1.73
31377554--31377646	24	3.8	25	73	12	86	35	22	25	16	1.94
31384368--31384399	16	2.0	16	100	0	64	50	25	6	18	1.70
31388598--31388712	39	2.9	39	97	0	221	31	18	20	29	1.96
31393604--31393722	25	4.8	25	70	11	93	33	19	26	21	1.97
31393787--31393856	27	2.7	26	84	4	95	38	20	25	15	1.92
31395150--31395207	25	2.3	26	90	3	100	58	0	5	36	1.20
31406207--31406300	49	1.9	49	82	4	118	35	7	18	39	1.78
31409815--31409870	20	2.7	22	78	13	64	69	0	25	5	1.09
31409831--31409874	19	2.2	20	96	4	81	70	0	22	6	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31410377--31410401	3	8.3	3	100	0	50	0	68	0	32	0.90
31414944--31414988	22	2.0	22	95	0	81	48	8	11	31	1.69
31420926--31420969	22	2.0	22	86	0	61	25	9	13	52	1.70
31433060--31433110	23	2.2	23	89	0	75	29	9	19	41	1.84
31433491--31433871	70	5.5	70	84	1	426	31	23	18	26	1.98
31433473--31433871	140	2.9	140	86	1	550	31	23	18	27	1.97
31437243--31437374	60	2.2	60	77	6	142	30	17	12	40	1.86
31447345--31447461	25	4.7	25	78	7	105	35	21	25	17	1.95
31451031--31451200	57	3.0	57	88	1	243	38	14	20	27	1.90
31451198--31451430	69	3.4	69	90	1	342	20	20	24	34	1.96
31458500--31458529	15	1.9	16	93	6	53	23	3	0	73	0.98
31460981--31461011	15	2.1	15	100	0	62	22	32	6	38	1.80
31464369--31464398	15	2.0	15	93	0	51	23	46	6	23	1.75
31465328--31465358	15	2.1	15	93	0	53	25	29	6	38	1.81
31465841--31465914	37	2.0	38	83	2	96	28	18	10	41	1.84
31467169--31467198	2	15.0	2	100	0	60	0	50	0	50	1.00
31467198--31467227	2	15.0	2	100	0	60	50	0	0	50	1.00
31475268--31475293	3	8.7	3	100	0	52	65	0	0	34	0.93
31478857--31478922	30	2.2	31	76	15	75	28	6	3	62	1.34
31480429--31480464	18	2.0	18	94	0	63	25	27	8	38	1.84
31480430--31480471	18	2.3	18	87	0	57	23	28	4	42	1.74
31480869--31480950	34	2.4	34	85	4	112	43	12	0	43	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31480915--31480970	28	2.0	28	86	10	78	39	14	0	46	1.44
31499677--31499704	13	2.2	13	100	0	56	21	25	7	46	1.76
31505232--31505256	13	1.9	13	100	0	50	48	16	0	36	1.46
31505267--31505320	25	2.2	25	83	6	65	27	20	7	44	1.78
31507681--31507741	27	2.4	25	83	5	68	45	22	13	18	1.83
31507702--31507752	25	2.0	25	88	0	75	39	23	11	25	1.89
31510745--31510824	22	3.6	22	86	0	115	30	27	15	27	1.96
31532543--31532578	19	2.0	17	89	10	54	30	25	0	44	1.54
31533238--31533277	19	2.1	19	86	9	55	37	5	0	57	1.21
31541539--31541589	17	2.9	16	78	21	50	45	11	1	41	1.52
31541808--31541850	21	2.0	21	91	8	70	44	18	4	32	1.71
31550690--31550719	16	1.9	16	93	6	53	30	0	20	50	1.49
31553972--31553997	11	2.4	11	100	0	52	42	0	7	50	1.31
31559390--31559500	50	2.2	50	85	3	143	25	24	19	30	1.98
31559390--31559500	25	4.4	25	73	8	91	25	24	19	30	1.98
31568680--31568710	15	2.1	15	93	0	53	22	16	25	35	1.94
31569740--31569820	40	2.0	40	100	0	162	22	17	24	35	1.95
31594847--31594880	17	2.1	17	88	5	52	76	11	0	11	1.02
31601277--31601363	29	3.0	29	86	1	120	57	11	11	19	1.64
31605775--31605833	29	2.0	29	100	0	118	33	13	16	35	1.88
31610059--31610156	11	9.4	11	72	23	61	57	0	4	38	1.18
31610051--31610145	30	3.1	30	86	7	122	60	0	3	36	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31610082--31610166	41	2.1	40	89	4	127	60	0	3	36	1.14
31615606--31615652	3	15.7	3	95	0	58	34	0	8	57	1.29
31623099--31623173	38	2.0	38	84	10	100	37	28	17	17	1.92
31637508--31637532	6	4.2	6	100	0	50	84	0	0	16	0.63
31638359--31638554	99	2.0	99	93	0	338	22	22	13	41	1.88
31641798--31641853	24	2.6	22	76	20	64	39	0	0	60	0.97
31641809--31641856	24	2.0	25	84	15	75	41	0	0	58	0.98
31643633--31643700	31	2.3	31	82	10	79	45	5	4	44	1.48
31657923--31657959	17	2.2	17	100	0	74	29	21	10	37	1.88
31660865--31660896	14	2.3	14	100	0	64	50	0	31	18	1.48

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