genome.fa.s13.2.7.7.80.10.50.1000.156.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  156  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)
46618580--46618646	29	2.3	30	94	2	118	26	0	26	46	1.53
46618662--46618729	25	2.7	25	95	0	118	44	11	0	44	1.40
46618697--46618783	44	2.0	45	93	2	149	51	10	0	37	1.36
46619206--46619240	18	1.9	18	94	0	61	34	8	31	25	1.86
46619879--46619910	7	4.6	7	100	0	64	59	12	0	28	1.34
46620081--46620118	20	1.9	20	84	10	51	55	7	2	34	1.43
46621060--46621090	11	2.8	11	90	0	53	51	6	22	19	1.69
46621674--46621746	29	2.5	28	82	10	85	64	4	2	28	1.26
46623311--46623367	3	19.0	3	100	0	114	66	0	0	33	0.92
46625186--46625210	9	2.8	9	100	0	50	36	12	12	40	1.79
46626128--46626157	11	2.7	11	100	0	60	76	0	0	23	0.78
46626125--46626172	25	1.9	25	83	8	62	75	2	0	22	0.91
46631664--46631702	20	1.9	20	84	5	51	69	0	7	23	1.14
46631873--46631909	20	1.9	20	88	5	58	67	5	0	27	1.12
46634538--46634571	17	2.0	17	88	11	52	38	2	5	52	1.41
46660605--46660648	2	22.0	2	100	0	88	0	50	0	50	1.00
46664453--46664496	21	2.1	21	100	0	88	27	29	11	31	1.91
46666608--46666650	18	2.4	18	88	0	59	27	23	20	27	1.99
46674788--46674839	27	1.9	27	88	0	77	32	26	11	28	1.91
46675532--46675588	25	2.2	25	90	3	87	31	22	1	43	1.64
46680200--46680240	7	5.9	7	100	0	82	58	0	14	26	1.37
46680884--46680926	22	2.0	20	86	8	59	37	9	2	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46681309--46681393	41	2.1	41	97	0	161	20	15	23	41	1.90
46682013--46682141	63	2.0	63	95	0	231	43	5	8	42	1.58
46685627--46685669	19	2.3	19	84	8	52	25	4	4	65	1.32
46688982--46689044	25	2.5	25	86	0	81	31	20	23	23	1.98
46688986--46689068	25	3.3	24	81	9	78	31	22	21	24	1.98
46689222--46689283	31	2.0	32	84	9	83	40	6	16	37	1.74
46693226--46693270	19	2.4	19	85	7	56	57	6	6	28	1.50
46693258--46693299	18	2.4	18	80	15	52	66	0	4	28	1.12
46693203--46693329	56	2.3	55	81	12	150	60	3	6	29	1.39
46693237--46693319	28	3.0	28	72	12	80	59	3	7	30	1.42
46693626--46693802	90	1.9	92	85	7	245	33	9	20	35	1.86
46709828--46709925	17	5.8	17	68	21	62	38	3	2	56	1.27
46709903--46710015	58	1.9	58	83	5	145	38	4	3	53	1.38
46712687--46712815	68	1.9	69	88	6	201	39	3	6	50	1.46
46717362--46717424	32	2.0	32	96	0	117	30	7	9	52	1.62
46718542--46718567	5	5.2	5	100	0	52	19	0	0	80	0.71
46721266--46721332	34	2.0	34	93	0	116	26	11	19	41	1.86
46727383--46727584	107	1.9	107	83	4	264	33	17	22	26	1.96
46736744--46736817	26	2.8	26	83	4	105	32	20	24	22	1.98
46736987--46737045	27	2.2	27	84	0	73	23	20	23	32	1.98
46736997--46737052	27	2.1	27	96	0	103	17	19	23	39	1.92
46748207--46748259	21	2.5	21	93	3	88	24	5	13	56	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46752700--46752853	70	2.2	70	96	0	281	30	7	26	35	1.83
46754975--46755033	29	2.0	29	96	0	109	22	23	25	28	1.99
46759720--46759765	20	2.2	21	88	3	67	8	26	13	52	1.69
46768502--46768554	26	2.0	26	100	0	106	33	15	15	35	1.88
46770522--46770554	3	11.0	3	100	0	66	0	33	33	33	1.58
46782590--46782627	3	12.7	3	100	0	76	68	31	0	0	0.90
46782698--46782735	17	2.2	17	86	9	51	76	2	2	18	1.02
46783663--46783695	17	2.0	17	88	5	50	75	9	15	0	1.03
46784372--46784624	41	5.8	41	70	13	155	29	20	19	30	1.97
46784371--46785218	44	18.8	45	68	13	311	30	22	17	29	1.97
46784364--46784720	137	2.6	137	90	0	527	29	20	18	31	1.96
46784561--46784856	92	3.2	92	72	13	313	31	19	17	31	1.95
46784503--46784946	181	2.4	181	91	1	701	30	22	17	30	1.96
46784595--46784902	96	3.3	96	72	13	327	31	21	16	30	1.95
46784653--46785211	223	2.5	224	81	3	647	30	23	16	28	1.96
46786086--46786133	5	9.8	5	80	11	55	0	18	0	81	0.70
46786085--46786123	18	2.2	18	85	0	51	0	17	0	82	0.68
46789496--46789564	3	23.0	3	100	0	138	66	0	0	33	0.92
46796585--46796711	3	42.3	3	88	3	193	62	0	37	0	1.01
46805082--46805132	25	2.0	25	100	0	102	41	19	7	31	1.80
46815014--46815046	17	1.9	17	93	0	57	33	21	6	39	1.78
46821394--46821649	125	2.1	124	88	2	379	30	16	22	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46824989--46825022	15	2.3	15	90	5	52	67	5	0	26	1.13
46825121--46825176	28	2.0	29	92	3	96	60	1	0	37	1.07
46825212--46825327	22	5.0	22	76	15	108	37	0	31	31	1.58
46825230--46825287	29	2.0	29	89	0	89	36	0	34	29	1.58
46825212--46825308	51	1.9	50	85	6	133	37	0	32	29	1.58
46836704--46837171	44	10.8	43	68	10	199	30	18	22	28	1.97
46836703--46837206	173	2.9	171	84	2	616	30	18	22	28	1.97
46837928--46837955	6	4.7	6	100	0	56	14	0	0	85	0.59
46839759--46839792	13	2.6	13	86	13	52	76	5	0	17	0.98
46840164--46840206	20	2.1	20	86	4	59	62	4	0	32	1.15
46840181--46840239	21	2.8	20	75	10	55	69	3	1	25	1.13
46841610--46842277	44	15.2	44	66	14	250	24	25	19	29	1.99
46841560--46842096	132	4.1	132	93	0	894	24	24	20	29	1.99
46841900--46842277	176	2.1	176	94	0	648	25	25	19	29	1.98
46853988--46854020	13	2.5	13	90	9	50	72	6	3	18	1.18
46854412--46854469	21	2.8	20	74	10	53	68	3	1	25	1.14
46875552--46875592	21	2.0	21	85	9	57	41	7	0	51	1.30
46875883--46875953	29	2.5	29	81	6	83	32	7	2	57	1.40
46876299--46876333	10	3.4	10	92	4	52	77	0	0	22	0.78
46876771--46876817	16	2.7	17	84	12	60	25	0	12	61	1.31
46884576--46885239	284	2.3	282	93	1	1125	30	12	6	50	1.66
46885636--46885765	14	9.5	14	68	24	55	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46885680--46885747	34	2.0	35	97	2	129	0	29	0	70	0.87
46885683--46885761	34	2.2	34	88	8	113	0	32	0	67	0.91
46885869--46885907	21	1.9	21	89	5	62	2	2	10	84	0.81
46885870--46885916	21	2.2	22	81	11	53	6	2	10	80	0.96
46886998--46887046	13	3.7	13	84	13	64	75	2	2	20	1.00
46886998--46887052	13	4.0	14	82	17	62	74	1	3	20	1.06
46887951--46888000	21	2.5	20	71	28	52	50	0	2	48	1.12
46890210--46890238	12	2.3	13	94	5	51	20	0	0	79	0.74
46897474--46897512	6	6.5	6	96	0	69	2	79	0	17	0.84
46897474--46897517	18	2.4	18	88	0	70	4	75	0	20	0.98
46908346--46908395	3	17.3	3	79	8	59	68	2	0	30	1.01
46918841--46918945	36	2.9	36	82	0	120	46	16	16	20	1.84
46926159--46926241	26	3.2	26	66	16	73	32	26	10	30	1.90
46926009--46926347	50	6.7	51	81	2	326	29	23	15	30	1.96
46926005--46926347	102	3.4	101	85	2	384	29	23	16	30	1.96
46926819--46926872	16	3.5	16	72	10	58	22	25	7	44	1.79
46926818--46926879	30	2.1	29	93	3	106	25	29	6	38	1.81
46930169--46930199	14	2.2	14	88	0	53	83	0	9	6	0.79
46930171--46930197	14	1.9	14	100	0	54	81	0	11	7	0.87
46931526--46931671	49	3.0	48	91	3	229	32	28	12	26	1.92
46933733--46934119	50	7.7	50	81	3	436	29	24	16	29	1.96
46939874--46939918	3	15.0	3	100	0	90	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46940089--46940136	3	16.0	3	87	8	71	64	0	4	31	1.12
46940142--46940189	25	2.0	24	87	4	69	75	0	10	14	1.06
46940174--46940214	16	2.6	16	80	0	55	65	0	4	29	1.13
46944430--46944457	2	14.0	2	100	0	56	50	0	0	50	1.00
46944872--46944988	41	2.9	41	92	2	191	18	25	26	29	1.98
46946083--46946116	2	17.0	2	100	0	68	50	0	0	50	1.00
46948293--46948335	15	2.9	15	80	13	52	6	18	11	62	1.50
46948954--46949259	22	13.6	22	70	15	69	41	3	2	52	1.31
46948954--46949104	24	6.0	27	73	17	130	43	2	2	51	1.29
46949000--46949104	50	2.1	51	89	5	160	40	2	3	52	1.34

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