genome.fa.s10.2.7.7.80.10.50.1000.175.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  175  of  202  ( 24201 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)
54486096--54486130	18	1.9	18	88	0	52	20	20	28	31	1.97
54487365--54487395	15	2.1	15	100	0	62	38	25	12	22	1.90
54487404--54487445	20	2.1	20	90	0	66	30	16	11	40	1.85
54489888--54489918	9	3.4	9	90	0	53	38	22	12	25	1.90
54493086--54493137	24	2.2	24	89	0	77	36	11	19	32	1.87
54499614--54499713	41	2.4	41	86	6	141	30	20	22	28	1.98
54503877--54504330	131	3.5	131	92	0	714	24	23	21	30	1.99
54510522--54510561	20	2.0	20	85	5	53	7	37	2	52	1.43
54519554--54519588	17	2.1	17	89	10	54	45	22	0	31	1.53
54521029--54521081	3	17.7	3	100	0	106	32	0	0	67	0.91
54521464--54521513	4	12.5	4	86	0	73	48	24	4	24	1.68
54521830--54521854	2	12.5	2	100	0	50	0	0	48	52	1.00
54524839--54524889	4	12.8	4	100	0	102	25	23	0	50	1.49
54530200--54530245	21	2.2	22	81	14	62	30	6	17	45	1.73
54531207--54531238	2	16.0	2	93	0	55	46	0	0	53	1.00
54533275--54533327	3	17.3	3	78	3	52	66	0	7	26	1.18
54535471--54535509	18	2.2	17	86	13	53	33	0	20	46	1.51
54535727--54535802	23	3.3	23	98	0	143	22	21	27	28	1.99
54535932--54536004	38	1.9	37	86	8	103	45	1	21	31	1.61
54539274--54539399	28	4.5	28	87	2	173	31	11	25	30	1.92
54540128--54540483	23	15.3	23	71	16	180	27	17	16	38	1.91
54540090--54540484	93	4.2	93	94	0	637	27	17	16	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54540090--54540514	46	9.1	45	75	7	357	28	17	16	37	1.91
54543031--54543062	6	5.7	6	89	10	50	31	0	0	68	0.90
54544304--54544370	9	7.7	9	75	9	50	32	0	14	52	1.43
54549305--54549378	27	2.7	27	87	0	112	28	18	40	12	1.87
54549531--54549667	41	3.4	41	86	1	168	16	24	17	40	1.90
54554496--54554561	26	2.5	27	82	7	73	54	3	0	42	1.15
54554949--54554995	16	2.9	16	81	9	60	14	12	0	72	1.13
54560266--54560305	15	2.5	16	88	8	55	70	5	5	20	1.26
54561445--54561919	237	2.0	237	96	0	880	29	16	15	38	1.90
54564366--54564400	18	1.9	18	88	0	52	80	5	0	14	0.89
54567644--54567693	20	2.5	20	83	6	66	54	6	2	38	1.37
54567702--54567760	29	2.0	30	90	9	95	67	3	0	28	1.06
54567704--54567755	19	2.7	19	77	16	54	69	3	0	26	1.06
54571230--54571270	22	1.9	21	85	5	55	14	0	31	53	1.41
54571395--54571711	125	2.5	125	87	2	458	31	16	22	29	1.96
54573079--54573749	335	2.0	335	93	0	1137	28	21	24	25	1.99
54575097--54575155	22	2.8	21	87	10	84	30	1	22	45	1.62
54575157--54575215	14	4.4	14	80	8	50	18	1	42	37	1.61
54575171--54575220	26	1.9	26	95	0	91	20	0	44	36	1.52
54575164--54575220	7	8.7	6	80	16	60	19	0	43	36	1.51
54575167--54575227	14	4.4	14	85	10	81	16	0	45	37	1.47
54575176--54575275	26	3.6	27	82	12	71	20	0	39	41	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54575817--54575859	18	2.4	18	84	0	59	46	9	27	16	1.77
54576507--54576532	7	3.7	7	100	0	52	57	15	0	26	1.38
54577594--54577654	30	2.0	31	93	3	106	37	0	42	19	1.52
54577703--54577739	9	4.1	9	92	0	65	29	10	13	45	1.77
54579423--54579447	11	2.3	11	100	0	50	36	16	8	40	1.77
54581663--54581713	25	2.0	25	100	0	102	31	11	29	27	1.92
54583631--54583655	3	8.3	3	100	0	50	32	32	0	36	1.58
54583840--54583894	25	2.2	25	83	9	67	38	1	14	45	1.56
54589764--54589811	20	2.6	18	78	21	55	72	6	16	4	1.20
54596083--54596142	20	3.0	20	76	11	59	35	5	0	60	1.19
54596076--54596140	20	3.1	21	72	16	55	32	6	0	61	1.21
54596021--54596281	134	1.9	134	87	6	382	29	5	2	62	1.30
54596157--54596226	29	2.5	28	77	9	70	25	5	2	65	1.28
54596213--54596273	20	3.0	20	77	13	63	36	4	0	59	1.19
54596222--54596273	20	2.6	20	82	11	70	38	5	0	55	1.24
54609187--54609379	97	2.0	97	91	2	316	36	23	9	30	1.87
54609656--54609680	9	2.8	9	100	0	50	68	8	0	24	1.16
54610180--54610237	22	2.6	22	84	7	73	43	17	3	36	1.66
54610193--54610309	19	5.8	19	86	8	126	37	16	9	36	1.81
54610216--54610309	19	4.8	19	90	5	152	36	15	10	37	1.83
54610538--54610838	132	2.3	132	88	4	430	30	23	16	28	1.97
54611008--54611515	132	3.8	132	87	2	553	29	26	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54611045--54611515	220	2.1	220	89	1	712	29	26	15	27	1.96
54611008--54611515	44	11.5	45	77	5	484	29	26	16	27	1.97
54612724--54612768	6	7.7	6	83	11	58	2	13	0	84	0.72
54612740--54612768	13	2.2	13	100	0	58	0	13	0	86	0.58
54612724--54612767	11	3.8	11	85	11	61	2	13	0	84	0.73
54617580--54617622	22	1.9	22	90	4	68	41	13	4	39	1.66
54617578--54617694	19	5.8	19	83	10	126	37	15	9	37	1.80
54617603--54617694	19	4.7	19	90	5	148	36	15	10	36	1.82
54617603--54617694	40	2.4	38	92	3	148	36	15	10	36	1.82
54620496--54620544	19	2.6	18	81	12	62	20	0	2	77	0.87
54628830--54628871	19	2.2	19	87	8	59	4	11	7	76	1.15
54629601--54629657	30	1.9	29	96	3	105	36	8	0	54	1.32
54638011--54638255	43	5.7	43	95	0	427	28	34	18	18	1.95
54638311--54638354	22	1.9	24	86	9	65	38	0	4	56	1.20
54641333--54641357	11	2.3	11	100	0	50	44	8	48	0	1.32
54642197--54642371	81	2.1	84	80	6	189	45	27	1	26	1.61
54642323--54642370	26	1.9	24	83	8	60	43	35	2	18	1.62
54642430--54642481	7	7.3	7	86	4	68	40	28	0	30	1.57
54642890--54643083	41	4.7	41	90	0	316	27	25	22	24	2.00
54643119--54643255	40	3.5	39	74	15	120	17	21	23	37	1.94
54643140--54643254	40	2.9	40	83	6	146	19	23	24	33	1.97
54643784--54643811	3	9.3	3	100	0	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54651432--54651590	78	2.0	78	100	0	318	30	22	11	34	1.90
54655696--54655748	23	2.3	23	84	12	65	47	5	0	47	1.26
54662003--54662203	42	4.8	42	81	6	219	44	14	22	18	1.85
54661990--54662181	21	9.2	21	72	7	142	44	15	22	17	1.86
54662003--54662203	84	2.4	84	87	1	287	44	14	22	18	1.85
54662007--54662203	21	9.4	21	73	8	141	45	14	21	17	1.85
54663051--54663095	18	2.4	18	88	3	63	0	26	0	73	0.84
54663055--54663128	35	2.2	33	80	9	78	2	20	5	71	1.18
54663126--54663152	10	2.7	10	100	0	54	11	0	7	81	0.87
54667803--54667856	21	2.5	22	78	3	65	66	0	0	33	0.92
54667807--54667863	25	2.2	27	84	12	75	59	0	0	40	0.97
54669045--54669089	22	2.0	22	82	0	54	48	0	8	42	1.34
54676463--54676757	82	3.5	82	77	6	254	47	11	13	26	1.78
54676638--54676802	88	1.9	87	83	3	215	44	7	12	34	1.72
54676909--54676958	24	2.1	23	85	3	64	66	4	0	30	1.10
54676915--54676958	22	2.0	23	86	4	63	63	2	0	34	1.07
54676909--54676967	24	2.5	23	79	15	59	64	3	0	32	1.10
54678150--54678193	3	14.7	3	81	9	54	38	0	2	59	1.10
54678148--54678191	22	2.0	22	86	8	63	40	0	2	56	1.11
54678234--54678281	22	2.2	22	82	14	55	70	8	20	0	1.12
54679189--54679272	21	4.0	21	84	4	98	15	21	26	36	1.93
54682107--54682361	83	3.2	77	78	11	198	46	12	13	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54682358--54682667	87	3.6	86	83	2	354	43	10	14	31	1.80
54682351--54682667	173	1.8	173	82	2	413	43	10	14	30	1.80
54682440--54682675	86	2.7	86	82	3	217	44	10	14	30	1.79
54682802--54682853	22	2.5	20	79	11	59	65	5	1	26	1.26
54684309--54684542	83	2.9	83	79	5	210	47	11	12	29	1.76
54684535--54684695	77	2.1	76	83	5	200	45	8	14	31	1.75
54684609--54684795	90	2.1	89	86	4	252	44	9	12	32	1.75
54687219--54687262	2	22.5	2	86	4	63	52	2	0	45	1.13
54687322--54687358	2	18.5	2	94	0	65	51	0	0	48	1.00
54687567--54687604	3	12.7	3	100	0	76	65	0	0	34	0.93

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