genome.fa.s9.2.7.7.80.10.50.1000.108.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  108  of  226  ( 27023 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)
37053547--37053602	25	2.2	27	78	12	64	50	5	1	42	1.35
37054900--37054957	12	5.0	12	77	6	66	43	13	12	31	1.81
37054901--37054957	23	2.5	23	94	0	96	43	12	12	31	1.79
37056763--37056820	9	6.4	9	85	0	80	41	20	10	27	1.85
37056763--37056820	18	3.2	18	87	0	89	41	20	10	27	1.85
37062133--37062213	37	2.2	37	84	4	101	25	17	14	41	1.88
37062210--37062462	40	6.3	40	83	4	235	33	16	22	28	1.95
37065901--37066243	167	2.0	167	98	0	668	36	17	24	21	1.95
37066945--37066983	19	2.1	19	90	0	60	48	12	10	28	1.74
37066964--37067037	35	2.1	35	94	0	130	40	14	10	33	1.81
37067073--37067111	20	1.9	20	84	5	51	28	12	30	28	1.93
37067531--37067598	25	2.7	24	82	8	82	17	26	20	35	1.95
37070906--37071141	37	6.3	37	76	1	184	29	16	16	37	1.90
37070870--37071022	75	2.0	76	80	6	168	30	16	17	35	1.92
37070906--37071141	112	2.1	112	90	0	373	29	16	16	37	1.90
37075279--37075317	19	2.0	19	85	5	51	64	5	0	30	1.15
37081085--37081167	42	2.0	42	95	0	148	36	6	6	51	1.51
37083821--37083847	4	6.8	4	100	0	54	77	0	22	0	0.76
37083957--37084002	16	2.6	18	76	16	51	28	6	8	56	1.54
37085511--37085573	33	1.9	33	83	6	83	20	4	47	26	1.70
37085746--37085821	30	2.5	30	89	0	107	10	9	40	39	1.72
37095303--37095359	27	2.1	27	84	9	73	43	15	22	17	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37095451--37095529	33	2.4	33	91	4	124	24	22	17	35	1.95
37096968--37097011	14	3.1	14	76	0	52	27	13	25	34	1.93
37096956--37097051	28	3.5	28	84	1	113	32	18	16	32	1.94
37106484--37106514	15	2.0	16	93	6	55	45	3	0	51	1.17
37116836--37116903	3	23.3	3	82	8	79	32	1	1	64	1.11
37116832--37116909	12	6.7	12	75	19	51	33	1	1	64	1.10
37118581--37118610	3	10.0	3	100	0	60	33	0	0	66	0.92
37123944--37124184	50	4.8	50	87	0	329	25	23	29	20	1.99
37131069--37131253	50	3.7	50	78	6	203	27	22	29	21	1.99
37133319--37133379	26	2.3	26	82	0	77	39	21	24	14	1.91
37136307--37136353	20	2.3	20	81	0	58	21	27	2	48	1.61
37142911--37142977	31	2.3	30	90	10	104	31	7	17	43	1.77
37154843--37154880	19	2.0	19	94	0	67	42	13	15	28	1.85
37158182--37158218	13	2.9	13	88	4	58	29	0	0	70	0.88
37158578--37158607	3	10.0	3	100	0	60	33	0	0	66	0.92
37164480--37164509	16	1.9	16	93	6	53	50	20	0	30	1.49
37165630--37165739	25	4.4	25	77	7	116	32	20	23	23	1.98
37165630--37165739	50	2.2	50	85	6	143	32	20	23	23	1.98
37167571--37167595	11	2.3	11	100	0	50	44	0	24	32	1.54
37169555--37169609	14	4.0	14	80	4	67	21	9	32	36	1.85
37169555--37169609	27	2.0	28	82	3	67	21	9	32	36	1.85
37171032--37171141	34	3.3	33	81	7	132	40	0	14	45	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37171203--37171471	126	2.1	126	88	2	398	37	14	15	31	1.89
37174533--37174589	25	2.3	23	81	18	71	52	3	0	43	1.18
37175016--37175051	18	2.0	18	94	0	63	41	5	27	25	1.77
37176803--37176863	30	2.0	30	90	0	95	37	3	27	31	1.73
37184218--37184353	50	2.7	51	80	6	170	24	16	27	30	1.97
37186356--37186504	74	2.0	74	100	0	298	31	14	20	33	1.93
37202504--37202563	28	2.1	28	87	0	84	55	5	23	16	1.61
37202472--37202626	83	1.8	85	82	5	199	43	2	30	23	1.67
37202704--37202764	29	2.1	29	90	0	95	57	1	26	14	1.47
37204335--37204385	20	2.5	21	81	6	61	11	27	21	39	1.88
37216584--37216623	19	2.0	20	85	4	55	57	5	7	30	1.48
37217041--37217068	2	14.0	2	100	0	56	50	0	0	50	1.00
37220132--37220278	38	3.8	38	79	7	136	44	10	9	34	1.72
37225972--37226223	42	5.9	43	89	1	321	32	25	17	25	1.97
37225972--37226223	85	3.0	85	85	2	319	32	25	17	25	1.97
37231355--37231569	7	30.7	7	69	10	100	42	35	2	20	1.65
37231355--37231535	21	8.7	21	72	9	120	43	35	1	19	1.61
37231714--37231752	21	1.9	20	94	5	69	56	15	0	28	1.40
37231836--37232025	40	4.8	40	83	0	236	27	24	19	28	1.98
37232070--37232179	40	2.8	40	88	0	175	28	22	19	30	1.98
37231940--37232305	154	2.4	153	87	0	518	28	21	18	31	1.97
37232228--37232303	40	1.9	40	86	5	109	31	23	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37232227--37232312	40	2.2	40	80	4	102	29	20	17	32	1.96
37232781--37232828	25	1.9	25	91	0	78	39	22	20	16	1.92
37242681--37242736	22	2.6	22	94	2	96	23	35	8	32	1.86
37244510--37244560	21	2.4	22	83	6	61	7	21	1	68	1.25
37248670--37249027	192	1.9	192	84	4	490	29	24	16	30	1.97
37249855--37249880	13	2.0	13	100	0	52	30	0	23	46	1.53
37258222--37258264	17	2.6	15	80	20	50	44	18	9	27	1.80
37258749--37258787	19	1.9	19	85	10	51	46	0	2	51	1.14
37260227--37260305	21	3.7	21	81	8	70	16	27	25	30	1.97
37260256--37260318	21	3.0	21	83	2	83	15	25	25	33	1.95
37266395--37266461	3	23.3	3	77	11	61	34	1	0	64	1.03
37267714--37267774	23	2.8	20	76	11	59	16	22	22	37	1.93
37268878--37268919	17	2.4	17	92	4	66	38	23	19	19	1.93
37269121--37269211	18	5.1	18	76	5	76	47	18	4	29	1.68
37271325--37271392	28	2.4	27	77	18	77	27	23	25	23	2.00
37272064--37272102	20	2.0	20	85	10	53	41	7	12	38	1.72
37273691--37273809	28	4.2	28	84	4	168	31	20	24	24	1.98
37274118--37274200	27	3.1	26	84	6	87	24	16	20	38	1.93
37274152--37275017	27	31.9	27	84	4	784	20	19	20	39	1.92
37281837--37281914	29	2.7	29	96	2	140	24	28	29	17	1.98
37287011--37287040	11	2.7	11	94	0	51	50	0	3	46	1.18
37289636--37289766	55	2.4	54	87	5	183	25	32	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37291497--37291630	65	2.1	63	81	13	152	47	14	8	29	1.74
37291691--37291749	19	3.3	17	79	11	73	40	8	13	37	1.75
37296480--37296536	20	2.8	20	89	0	78	42	0	31	26	1.56
37306843--37307033	50	3.8	50	85	0	247	27	22	28	20	1.99
37306847--37307071	50	4.5	49	79	6	172	29	23	26	21	1.99
37309478--37309524	19	2.4	19	89	3	76	29	10	12	46	1.76
37314630--37314671	17	2.5	17	88	7	59	35	2	19	42	1.64
37318627--37318716	46	2.0	46	91	4	146	22	5	11	61	1.50
37319766--37319814	19	2.6	19	100	0	98	53	24	22	0	1.47
37319767--37319807	11	3.9	11	78	21	52	53	26	19	0	1.45
37319972--37320008	15	2.5	15	100	0	74	35	0	37	27	1.57
37320299--37320352	2	27.0	2	100	0	108	50	0	0	50	1.00
37320929--37320981	28	1.9	28	84	3	72	58	3	0	37	1.16
37320935--37321031	18	5.1	18	71	15	61	56	3	2	38	1.27
37322459--37322508	20	2.4	21	83	6	57	58	4	0	38	1.17
37322499--37322537	20	2.0	20	85	10	53	53	0	0	46	1.00
37326911--37326971	26	2.3	26	97	0	113	47	21	6	24	1.74
37327504--37327688	50	3.7	49	76	9	162	21	27	23	27	1.99
37328094--37328150	30	1.9	30	85	0	78	31	24	7	36	1.82
37330180--37330275	26	3.7	26	78	8	97	33	33	11	21	1.89
37330841--37330897	29	2.0	29	86	6	80	15	28	35	21	1.94
37332303--37332412	36	3.1	35	71	7	87	33	20	23	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37332309--37332474	72	2.3	72	81	4	183	37	19	21	20	1.94
37332862--37333067	106	2.0	104	91	1	331	44	16	6	33	1.72
37336976--37337127	72	2.1	72	83	0	187	36	21	20	21	1.95
37337002--37337123	36	3.4	36	70	0	100	39	22	17	21	1.92
37337539--37337749	109	1.9	109	93	0	359	45	15	5	33	1.70
37343498--37343556	30	1.9	31	86	3	84	47	3	20	28	1.66
37354803--37354847	22	2.1	21	83	4	54	44	0	8	46	1.34
37357332--37357420	45	2.0	45	100	0	178	35	2	22	39	1.67
37359821--37359866	23	2.0	23	100	0	92	30	26	17	26	1.97
37359698--37359991	158	1.9	158	97	0	561	32	28	15	23	1.95

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226