genome.fa.s13.2.7.7.80.10.50.1000.121.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  121  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)
36835745--36835816	36	2.0	36	91	5	119	23	22	8	45	1.79
36837781--36837894	43	2.7	43	75	6	115	30	26	18	24	1.98
36848367--36848527	43	3.8	42	78	8	146	32	26	17	22	1.96
36859374--36859414	14	2.9	14	100	0	82	21	4	14	58	1.55
36863821--36863868	19	2.5	19	83	9	62	27	2	0	70	0.98
36863827--36863870	14	3.3	13	84	12	54	25	2	0	72	0.96
36867689--36867749	3	20.7	3	74	15	56	27	1	1	68	1.08
36867687--36867746	30	2.1	28	84	12	77	26	1	1	70	1.07
36867687--36867750	33	2.1	28	86	13	83	26	1	1	70	1.05
36867905--36867963	24	2.4	25	83	5	68	28	8	8	54	1.60
36869319--36869343	9	2.8	9	100	0	50	20	0	0	80	0.72
36876316--36876354	18	2.2	18	90	0	60	28	2	12	56	1.50
36880986--36881015	15	2.0	15	93	0	51	23	20	10	46	1.80
36881522--36881556	17	2.0	18	88	5	54	71	0	0	28	0.86
36888239--36888450	32	6.7	32	82	1	237	41	15	11	31	1.83
36888220--36888414	95	2.0	96	93	2	331	44	14	9	31	1.78
36888239--36888446	64	3.3	64	88	0	274	41	15	11	31	1.83
36888239--36888450	96	2.2	95	89	0	325	41	15	11	31	1.83
36902524--36902652	61	2.1	61	95	0	231	24	7	16	51	1.71
36906395--36906540	43	3.4	43	81	5	154	28	15	23	32	1.95
36909342--36909389	23	2.1	23	92	0	78	37	25	16	20	1.93
36916790--36916842	23	2.3	23	90	0	88	32	24	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36919130--36919196	26	2.6	26	82	0	80	20	19	28	31	1.97
36922357--36922435	28	2.8	28	88	0	104	37	18	16	26	1.92
36923245--36923274	16	1.9	15	93	6	51	53	16	0	30	1.44
36923614--36923653	18	2.2	19	95	4	73	67	10	2	20	1.31
36923871--36923902	15	2.1	15	100	0	64	50	6	12	31	1.65
36925745--36925881	49	2.8	49	92	2	213	32	27	13	26	1.94
36927063--36927158	23	4.2	23	75	0	102	33	25	17	23	1.96
36927387--36927428	18	2.2	20	87	8	61	52	14	0	33	1.42
36928809--36928935	31	3.5	37	70	23	108	33	3	0	62	1.11
36928841--36928914	28	2.5	30	79	20	86	32	2	0	64	1.07
36928830--36928935	11	10.3	11	70	19	52	34	3	0	61	1.14
36928927--36928977	26	2.0	25	81	11	59	39	1	5	52	1.37
36931629--36931662	18	1.9	17	88	5	50	5	55	20	17	1.62
36937658--36937708	27	1.9	26	88	4	75	78	7	7	5	1.09
36937718--36937767	12	3.8	13	81	5	57	76	0	20	4	0.95
36939982--36940197	44	5.0	43	65	9	132	25	25	25	22	2.00
36939843--36940238	87	4.5	87	85	4	505	28	24	23	23	1.99
36940457--36940550	44	2.1	44	88	0	134	30	21	22	25	1.98
36940359--36940540	98	1.9	97	82	6	233	32	20	19	26	1.97
36940357--36940626	142	1.9	142	96	0	504	32	20	20	26	1.97
36940636--36940868	50	4.7	50	87	1	279	33	24	21	21	1.98
36955703--36955827	54	2.3	54	95	0	223	9	28	31	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36966680--36966729	24	2.0	25	88	3	75	34	0	40	26	1.56
36967399--36967648	27	9.3	27	84	0	293	42	20	16	20	1.89
36967399--36967647	81	3.1	81	85	0	327	42	20	16	20	1.89
36972346--36972417	35	2.1	35	97	0	135	31	18	23	26	1.97
36978047--36978090	21	2.1	21	100	0	88	31	20	18	29	1.96
36987607--36987661	25	2.2	25	81	12	60	49	5	1	43	1.36
36987592--36987708	37	3.2	37	75	19	120	52	3	2	41	1.31
36989795--36989850	24	2.3	24	81	3	67	39	16	3	41	1.65
36994856--36994895	13	3.1	13	88	0	62	15	17	17	50	1.79
36996159--36996519	76	4.8	75	77	8	274	30	23	14	31	1.94
36996158--36996552	152	2.7	145	79	7	350	30	23	14	31	1.94
36996482--36996621	75	1.9	75	82	5	176	27	25	13	32	1.94
36999213--36999260	21	2.3	21	82	10	55	70	4	2	22	1.15
37000810--37000835	12	2.2	12	100	0	52	61	0	0	38	0.96
37001571--37002765	512	2.3	511	98	0	2300	29	13	22	35	1.92
37002775--37002836	7	8.9	7	81	13	65	43	40	0	16	1.48
37002765--37002836	28	2.6	29	86	4	94	41	41	0	16	1.48
37004786--37004833	24	2.1	24	84	7	64	47	10	2	39	1.49
37005283--37005312	6	5.0	6	100	0	60	83	0	0	16	0.65
37006249--37006297	14	3.6	14	81	5	57	0	20	2	77	0.87
37012297--37012329	8	4.2	8	84	7	50	15	0	33	51	1.43
37020903--37020946	18	2.4	18	100	0	88	4	15	0	79	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37020903--37020958	12	4.9	12	80	12	64	5	16	0	78	0.92
37020903--37020946	6	7.3	6	89	0	70	4	15	0	79	0.89
37023556--37023611	22	2.5	24	77	14	64	21	16	16	46	1.84
37025654--37025847	87	2.2	87	83	5	248	41	20	7	30	1.80
37025853--37025893	14	2.9	15	82	10	50	51	0	2	46	1.14
37026195--37026281	29	3.0	30	71	17	83	35	2	2	59	1.22
37026153--37026325	20	8.7	20	69	14	81	32	3	3	60	1.30
37026409--37026626	87	2.5	88	76	6	226	27	6	20	44	1.76
37026433--37026602	88	1.9	88	85	2	234	30	8	21	39	1.83
37030062--37030119	21	2.9	21	79	5	66	56	3	1	37	1.26
37030403--37030457	21	2.7	19	78	21	58	29	5	0	65	1.15
37034481--37034579	25	3.9	26	73	13	89	40	11	17	31	1.84
37037456--37037487	14	2.3	14	94	0	55	18	18	15	46	1.84
37043013--37043094	26	3.2	26	64	19	73	24	14	28	32	1.94
37043008--37043194	101	1.8	102	93	5	326	22	16	28	32	1.96
37043004--37043190	51	3.7	51	86	4	254	23	16	28	31	1.96
37043114--37043194	26	3.2	26	62	28	64	22	14	29	33	1.94
37043196--37043288	45	2.1	45	89	0	141	27	18	20	33	1.96
37045455--37045531	30	2.6	31	86	9	101	62	3	1	32	1.22
37052451--37052514	22	3.0	22	71	19	64	51	9	10	28	1.68
37055996--37056056	11	5.2	12	74	14	56	39	1	0	59	1.08
37055996--37056050	12	4.6	12	79	18	53	40	1	0	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37056013--37056106	17	5.4	17	65	28	54	40	2	2	55	1.24
37065201--37065238	17	2.2	17	90	0	58	44	2	2	50	1.30
37074339--37074457	42	2.8	43	82	5	152	24	17	27	30	1.97
37077415--37077460	23	2.0	22	83	4	56	45	8	8	36	1.66
37077793--37077939	31	4.5	33	77	8	140	39	3	1	55	1.25
37077794--37077905	31	3.5	31	86	2	143	40	2	1	55	1.24
37079205--37079325	39	2.9	44	79	8	112	35	2	6	55	1.39
37088728--37088769	20	2.2	19	83	12	50	57	4	19	19	1.58
37089228--37089257	16	1.9	16	93	6	53	30	0	20	50	1.49
37095508--37095587	32	2.5	32	90	6	119	51	13	8	26	1.70
37097434--37097476	21	2.0	21	82	8	52	32	13	6	46	1.71
37099224--37099265	22	1.9	22	95	0	75	54	0	0	45	0.99
37099733--37099840	55	2.0	55	85	7	148	38	13	7	39	1.73
37100258--37100286	2	15.0	2	92	7	51	48	0	0	51	1.00
37106368--37106416	21	2.3	21	83	13	57	0	34	0	65	0.93
37112167--37112196	13	2.3	13	94	0	51	50	6	13	30	1.67
37114013--37114047	18	2.0	18	94	5	63	42	0	0	57	0.99
37114020--37114065	18	2.8	17	83	9	51	45	0	0	54	0.99
37114032--37114088	26	2.2	25	81	3	69	40	0	3	56	1.17
37114112--37114163	16	3.1	17	81	10	54	44	0	3	51	1.19
37114135--37114168	16	2.1	16	100	0	68	35	0	0	64	0.94
37114133--37114193	26	2.3	26	83	5	70	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37114143--37114216	15	5.3	13	78	16	69	40	1	0	58	1.07
37113936--37114550	120	5.1	120	92	2	921	43	1	4	50	1.34
37113936--37114544	239	2.5	239	89	2	925	43	1	4	50	1.34
37114496--37114530	18	2.0	17	88	5	52	45	0	0	54	0.99
37114763--37114795	16	2.1	16	100	0	66	21	36	6	36	1.78
37116028--37116065	10	3.8	10	86	6	51	76	2	0	21	0.91
37116600--37116687	31	3.0	30	82	9	83	54	2	2	40	1.25
37116933--37116994	30	2.1	30	100	0	124	38	16	16	29	1.90
37117430--37117523	33	2.8	33	84	6	118	35	26	8	29	1.86
37117823--37117864	2	21.0	2	100	0	84	50	50	0	0	1.00

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