genome.fa.s9.2.7.7.80.10.50.1000.201.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  201  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)
63678323--63678376	28	1.9	28	88	7	83	51	11	0	37	1.37
63678323--63678383	28	2.2	28	85	5	79	50	11	0	37	1.39
63678427--63678468	19	2.2	19	86	0	57	40	14	7	38	1.73
63678883--63678920	18	2.2	17	95	4	67	42	5	0	52	1.24
63681496--63681555	17	3.5	17	75	8	59	25	20	26	28	1.99
63686498--63686547	23	2.1	24	85	3	66	48	30	12	10	1.73
63689637--63689689	22	2.4	22	87	3	70	20	24	33	20	1.97
63690409--63690456	25	1.9	25	86	0	69	29	10	25	35	1.89
63691160--63691198	18	2.2	18	95	0	69	10	12	10	66	1.44
63696018--63696055	9	4.2	9	83	9	51	57	0	2	39	1.12
63696188--63696238	17	3.1	16	83	13	59	76	0	3	19	0.94
63696211--63696235	6	4.2	6	100	0	50	84	0	0	16	0.63
63704983--63705016	15	2.3	15	89	0	50	2	20	0	76	0.92
63704964--63705018	20	2.8	20	80	0	56	7	25	0	67	1.16
63706679--63706780	51	2.0	51	83	7	127	35	10	28	25	1.90
63712162--63712668	32	15.8	32	82	4	619	43	15	9	31	1.79
63719863--63720586	32	22.7	32	83	1	862	42	16	9	31	1.80
63730064--63730107	16	2.8	17	83	13	58	45	0	2	52	1.13
63730286--63730321	17	2.1	18	89	5	56	30	5	0	63	1.17
63730333--63730370	18	2.2	18	85	4	51	50	2	0	47	1.15
63730522--63730568	20	2.5	19	83	12	62	57	0	0	42	0.98
63730522--63730571	18	2.7	18	82	14	66	54	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63730926--63730996	3	24.0	3	97	2	135	33	0	0	66	0.92
63743168--63743376	92	2.3	90	84	9	262	46	3	3	45	1.37
63743304--63743351	26	1.9	25	84	16	64	45	0	2	52	1.12
63743430--63743640	66	3.4	64	69	21	203	41	3	6	48	1.46
63743399--63743680	120	2.4	119	91	7	459	42	3	4	49	1.40
63743517--63743568	15	3.6	15	80	12	56	44	0	1	53	1.11
63743465--63743648	57	3.1	57	66	22	162	42	2	6	48	1.41
63743640--63743683	16	2.8	16	83	13	56	45	0	2	52	1.13
63743785--63743819	18	2.0	17	88	5	52	45	0	0	54	0.99
63743621--63743932	156	2.0	153	91	3	509	47	5	3	43	1.42
63744055--63744090	16	2.2	16	100	0	72	38	36	0	25	1.56
63750349--63750396	23	2.1	23	85	11	64	33	4	4	58	1.36
63751583--63751612	6	5.0	6	95	0	51	20	16	33	30	1.94
63755565--63755727	87	1.9	86	85	3	229	36	20	14	28	1.92
63761492--63761595	50	2.1	50	85	3	138	33	21	21	24	1.97
63761499--63761596	25	3.9	25	75	2	99	36	19	21	22	1.95
63764536--63764833	23	12.7	24	75	10	170	40	17	14	26	1.88
63764610--63764830	23	9.5	23	77	6	185	41	16	16	24	1.89
63764624--63764779	47	3.4	47	82	5	183	41	17	16	25	1.89
63764574--63764776	70	2.9	70	83	6	209	41	17	14	25	1.88
63764677--63764830	70	2.2	70	92	0	254	42	15	17	24	1.88
63764724--63764840	47	2.5	47	84	1	146	42	16	17	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63776694--63776750	3	19.0	3	100	0	114	66	0	0	33	0.92
63778300--63778335	2	18.0	2	94	0	63	50	2	0	47	1.15
63779060--63779099	20	2.0	21	85	14	57	35	0	17	47	1.48
63787850--63787901	24	2.2	24	85	0	68	34	1	7	55	1.39
63791999--63792061	30	2.1	30	82	5	74	30	17	23	28	1.97
63794736--63795196	245	1.9	245	86	0	661	31	13	12	42	1.81
63796956--63796990	16	2.2	16	89	0	52	42	2	8	45	1.49
63803399--63803436	19	2.0	19	100	0	76	26	26	10	36	1.89
63807307--63807347	15	2.8	16	86	13	54	0	39	4	56	1.21
63815472--63815522	13	3.8	13	82	14	68	56	0	0	43	0.99
63815477--63815520	14	3.1	14	87	6	63	61	0	0	38	0.96
63815482--63815544	27	2.4	27	84	12	78	58	0	1	39	1.07
63818430--63818466	18	2.1	18	94	0	65	24	27	8	40	1.83
63818721--63818798	21	3.7	21	86	6	113	29	41	16	12	1.86
63822057--63822432	125	3.0	124	82	5	452	28	16	17	38	1.91
63822509--63822638	34	3.8	33	78	6	143	45	14	0	39	1.51
63827649--63827688	12	3.5	12	77	22	50	32	2	0	65	1.06
63827724--63827757	6	5.7	6	100	0	68	50	14	0	35	1.44
63827778--63827808	12	2.6	12	94	0	53	19	9	0	70	1.14
63829598--63829713	56	2.1	56	98	0	223	34	17	13	34	1.89
63833509--63833558	20	2.5	20	90	3	75	26	4	0	70	1.05
63833594--63833634	17	2.3	18	91	8	66	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63833501--63833632	9	14.3	9	69	15	65	31	3	0	63	1.17
63833648--63833683	17	2.1	17	89	5	54	19	2	8	69	1.27
63833987--63834052	2	35.0	2	82	11	86	53	0	0	46	1.00
63834327--63834368	2	21.0	2	100	0	84	50	0	0	50	1.00
63837960--63837997	18	2.1	18	90	5	58	42	5	0	52	1.24
63839331--63839361	16	1.9	16	100	0	62	32	0	3	64	1.09
63850283--63850343	24	2.6	24	81	2	70	29	13	14	42	1.84
63850291--63850352	23	2.7	23	79	2	70	33	14	11	40	1.82
63852464--63852548	6	13.3	6	76	14	64	72	3	20	3	1.14
63858182--63858217	18	2.1	17	89	5	54	22	27	0	50	1.50
63859189--63859231	18	2.4	18	80	0	50	32	0	11	55	1.36
63860392--63860454	24	2.6	24	76	0	72	41	7	36	14	1.75
63861119--63861148	14	2.1	14	93	0	51	36	16	20	26	1.93
63861199--63861238	9	4.4	9	93	0	71	45	10	12	32	1.75
63861248--63861289	20	2.2	20	91	4	68	38	0	0	61	0.96
63861366--63861401	14	2.6	14	100	0	72	22	55	5	16	1.62
63861513--63861551	15	2.3	18	75	25	57	15	30	5	48	1.66
63861519--63861547	15	1.9	15	100	0	58	20	20	6	51	1.70
63866283--63866972	342	2.0	342	100	0	1380	32	17	21	27	1.96
63868826--63868864	16	2.3	17	91	8	62	33	0	0	66	0.92
63869513--63869558	5	9.6	5	95	4	78	58	0	0	41	0.98
63870410--63870447	16	2.3	17	90	4	60	50	0	2	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63870410--63870447	17	2.3	17	86	4	51	50	0	2	47	1.15
63870405--63870565	53	3.1	53	84	11	199	55	1	3	39	1.26
63870477--63870565	30	3.2	30	66	21	93	56	2	3	38	1.29
63870745--63870773	2	14.5	2	100	0	58	51	0	0	48	1.00
63873080--63873361	124	2.3	123	87	3	397	20	19	27	32	1.97
63873080--63873364	123	2.3	122	87	3	401	20	20	27	32	1.97
63873019--63873374	41	8.7	40	79	7	322	21	18	28	32	1.97
63874799--63874964	51	3.3	50	75	6	165	29	14	26	29	1.95
63874937--63875002	32	2.1	32	100	0	132	34	9	25	30	1.87
63875000--63875039	20	2.0	20	100	0	80	25	15	25	35	1.94
63875037--63875185	50	2.9	50	84	5	192	27	17	26	28	1.98
63875020--63875183	51	3.2	50	81	5	204	27	15	26	30	1.96
63879313--63879350	18	2.1	18	90	0	58	42	21	15	21	1.89
63879520--63879572	18	2.9	18	80	2	61	41	45	1	11	1.51
63879614--63879648	6	5.8	6	100	0	70	65	17	0	17	1.27
63879688--63879734	9	5.2	9	92	0	76	23	10	27	38	1.88
63879688--63879734	18	2.6	18	96	0	85	23	10	27	38	1.88
63883175--63883554	51	7.5	50	77	5	368	28	15	27	29	1.96
63883175--63883554	102	3.7	102	92	0	582	28	15	27	29	1.96
63883538--63883571	17	2.0	17	100	0	68	29	5	35	29	1.81
63883488--63883621	67	2.0	67	97	0	250	30	14	26	28	1.95
63885483--63885518	14	2.6	14	91	4	56	50	0	2	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63886636--63886715	31	2.6	31	95	0	142	18	15	21	45	1.86
63888837--63888861	12	2.1	12	100	0	50	36	8	8	48	1.62
63892269--63892308	18	2.2	18	86	0	53	65	2	25	7	1.32
63895927--63895952	7	3.7	7	100	0	52	11	15	0	73	1.11
63902219--63902287	10	6.8	10	77	11	61	69	0	5	24	1.10
63902234--63902289	19	2.8	19	92	7	94	66	0	5	28	1.14
63902224--63902280	28	2.0	28	83	6	71	70	0	3	26	1.03
63902234--63902292	21	3.0	20	95	5	102	64	0	5	30	1.15
63902757--63902851	9	11.1	8	71	17	59	32	0	1	66	0.99
63902759--63902833	9	8.1	10	77	15	65	33	0	1	65	1.01

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