genome.fa.s9.2.7.7.80.10.50.1000.166.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  166  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)
52985131--52985190	27	2.2	26	83	13	77	63	0	36	0	0.95
52985157--52985196	16	2.4	16	87	4	62	67	0	32	0	0.91
52985211--52985257	20	2.3	20	82	7	60	72	2	25	0	0.96
52985157--52985243	16	5.1	16	69	17	50	64	1	34	0	1.01
52989022--52989050	14	2.1	14	100	0	58	65	0	0	34	0.93
52990845--52990945	52	1.9	52	90	4	159	34	3	2	58	1.32
52992197--52992221	13	1.9	13	100	0	50	56	4	0	40	1.18
52994221--52994399	26	7.8	22	67	22	84	64	0	35	0	0.94
52994235--52994364	18	6.9	18	68	18	70	66	0	33	0	0.92
52994240--52994415	39	4.8	34	77	19	142	67	0	32	0	0.91
52994240--52994421	75	2.4	74	88	9	253	67	0	32	0	0.91
52994700--52994758	27	2.2	27	87	0	82	30	28	25	15	1.96
52994825--52994855	9	3.4	9	100	0	62	77	0	22	0	0.77
52994866--52994905	11	3.7	11	86	6	64	72	0	25	2	0.97
52994929--52994967	19	2.0	21	85	10	55	23	0	7	69	1.14
52998455--52998952	101	4.9	104	78	13	445	35	14	16	33	1.90
52998639--52998918	107	2.6	106	82	7	350	35	14	15	34	1.88
52998704--52998953	108	2.4	100	84	11	328	37	14	15	32	1.87
52998639--52998952	108	3.0	105	81	11	322	36	14	15	33	1.88
53001811--53002123	104	3.0	105	87	5	442	30	15	14	39	1.88
53005915--53005949	18	1.9	18	100	0	70	11	51	5	31	1.61
53006812--53006870	3	19.7	3	92	0	100	66	30	1	1	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53006936--53006974	20	2.0	21	85	10	55	66	10	0	23	1.22
53007098--53007225	27	4.7	27	90	3	179	17	28	29	25	1.97
53007644--53007851	104	2.0	104	98	0	398	33	8	19	38	1.83
53008923--53008969	16	2.7	17	84	12	60	25	0	12	61	1.31
53010037--53010083	19	2.7	17	84	12	60	63	10	0	25	1.26
53010042--53010075	13	2.6	13	90	0	50	64	11	0	23	1.26
53011578--53011706	45	2.8	44	81	7	123	23	22	24	29	1.99
53016785--53016852	33	2.1	33	88	0	100	26	42	14	16	1.86
53018880--53018951	31	2.3	32	85	2	101	26	6	2	63	1.33
53018922--53018964	19	2.5	17	81	11	52	27	4	0	67	1.10
53021513--53021569	21	2.7	21	75	2	60	28	10	0	61	1.29
53021740--53021776	14	2.7	14	84	16	51	29	2	0	67	1.04
53021980--53022023	21	2.0	22	91	4	72	13	9	6	70	1.33
53036308--53036361	27	2.0	27	85	0	72	42	1	9	46	1.46
53053997--53054101	40	2.5	41	75	14	99	30	3	12	53	1.56
53059393--53059423	10	3.0	10	95	4	53	58	0	0	41	0.98
53060050--53060312	10	26.0	10	65	17	62	1	30	0	68	0.97
53060080--53060309	24	10.7	23	71	19	135	1	30	0	68	0.97
53060082--53060310	44	5.3	44	83	10	301	1	29	0	68	0.97
53060119--53060296	38	4.4	36	75	19	122	1	30	0	67	0.97
53060077--53060309	82	2.8	82	89	5	337	1	30	0	68	0.97
53071672--53071723	24	2.2	24	85	0	68	55	5	3	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53077824--53077996	42	4.0	42	87	2	211	30	17	18	34	1.94
53077825--53077990	21	7.8	21	72	11	113	28	18	18	34	1.95
53078355--53078401	3	15.7	3	100	0	94	34	0	0	65	0.93
53080975--53081007	5	6.6	5	92	0	57	18	3	0	78	0.87
53081059--53081097	20	2.0	20	95	5	71	41	5	2	51	1.38
53081102--53081172	13	5.1	14	69	20	51	53	5	0	40	1.24
53086785--53086818	12	2.8	12	86	0	50	5	20	44	29	1.75
53086554--53087204	341	1.9	341	83	4	857	27	15	25	31	1.96
53090101--53090149	16	3.3	15	82	5	55	42	4	14	38	1.64
53089944--53090290	169	2.1	169	81	4	411	33	11	21	33	1.90
53090283--53090314	3	10.7	3	100	0	64	65	0	0	34	0.93
53092362--53092393	16	2.1	16	94	5	57	15	43	15	25	1.86
53093313--53093600	3	95.7	3	72	8	192	30	6	3	59	1.39
53098394--53098928	44	11.8	44	76	8	432	31	18	22	27	1.97
53098398--53098884	89	5.4	89	80	6	493	31	17	23	27	1.97
53098394--53098739	133	2.6	133	81	2	399	30	19	24	26	1.98
53100367--53100598	3	77.0	3	70	10	143	31	6	3	58	1.43
53104035--53104092	24	2.4	24	94	0	98	37	3	6	51	1.46
53105915--53105953	12	3.2	12	81	3	51	51	10	17	20	1.74
53107728--53107779	24	2.2	24	89	0	77	34	3	9	51	1.53
53110170--53110199	16	1.9	16	93	6	53	23	6	13	56	1.60
53116076--53116100	8	3.1	8	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53118919--53118962	19	2.4	18	81	7	52	45	0	0	54	0.99
53120357--53120455	43	2.3	43	96	0	180	30	34	18	17	1.94
53120655--53120714	18	3.4	18	64	13	52	40	10	6	43	1.64
53125039--53125323	41	7.0	41	88	0	417	31	30	19	18	1.96
53125355--53125489	40	3.4	39	77	7	130	18	20	22	38	1.93
53126812--53126898	44	2.0	44	81	4	104	33	17	8	41	1.78
53127289--53127347	28	2.1	28	100	0	118	22	20	20	37	1.95
53131088--53131119	2	16.0	2	100	0	64	50	0	0	50	1.00
53132094--53132134	14	2.7	15	82	17	50	51	2	7	39	1.43
53133213--53133355	42	3.4	42	83	5	173	29	11	37	22	1.89
53133327--53133451	42	3.0	42	66	12	103	28	9	39	23	1.86
53133479--53133582	42	2.5	42	90	0	163	29	10	34	25	1.89
53134121--53134195	29	2.6	29	81	10	91	48	6	0	45	1.29
53134705--53134867	85	2.0	84	96	3	303	28	7	11	52	1.64
53135304--53135341	17	2.2	18	85	4	51	18	0	5	76	0.97
53136559--53136596	20	1.9	20	100	0	76	28	10	5	55	1.56
53136614--53136933	100	3.2	99	90	4	488	41	12	16	28	1.85
53140713--53141104	114	3.5	110	86	9	521	31	16	13	38	1.88
53145690--53145735	8	6.0	8	77	10	51	80	6	0	13	0.89
53145691--53145739	23	2.1	23	100	0	98	79	8	0	12	0.93
53145692--53145739	15	3.2	15	88	5	62	79	8	0	12	0.94
53145750--53145787	6	6.0	6	88	11	58	81	0	18	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53146599--53146629	9	3.6	9	91	8	55	80	0	9	9	0.90
53146599--53146635	8	4.6	8	93	6	58	81	0	8	10	0.89
53147853--53148317	44	10.8	44	73	10	293	29	21	21	26	1.99
53147933--53148228	87	3.4	87	71	12	273	30	20	21	28	1.98
53147804--53148316	175	3.0	172	88	5	759	30	21	22	26	1.98
53147852--53148402	44	12.8	43	70	12	208	29	21	21	27	1.98
53148388--53149183	88	9.0	88	90	0	1234	27	23	25	24	2.00
53149199--53149480	96	2.9	96	93	0	476	30	18	21	29	1.97
53149490--53149645	44	3.5	44	70	10	147	32	17	21	28	1.96
53149485--53149694	88	2.4	88	93	1	350	33	16	20	29	1.95
53149534--53149685	44	3.5	44	71	8	148	34	16	19	30	1.94
53149700--53149826	44	2.9	44	76	6	123	32	21	19	26	1.97
53149573--53149837	142	1.9	142	87	1	397	32	18	20	28	1.96
53151233--53151263	3	10.3	3	100	0	62	32	0	0	67	0.91
53151710--53152231	108	4.8	108	82	8	650	30	17	18	33	1.94
53153658--53153691	10	3.2	10	91	8	50	0	14	0	85	0.60
53153654--53153693	15	2.7	15	88	3	55	0	15	0	85	0.61
53157692--53157716	13	1.9	13	100	0	50	28	0	0	72	0.86
53160254--53160329	27	2.8	27	91	0	116	26	23	15	34	1.95
53162737--53162789	13	4.1	13	80	9	72	30	5	26	37	1.79
53179120--53179146	7	3.9	7	100	0	54	11	0	0	88	0.50
53187857--53187883	7	3.9	7	100	0	54	11	0	0	88	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53201633--53201710	36	2.2	36	83	4	95	10	23	1	65	1.31
53201799--53201865	26	2.5	26	78	14	64	10	22	1	65	1.31
53204312--53204337	9	2.9	9	100	0	52	69	11	0	19	1.18
53212819--53212877	24	2.4	25	77	8	59	28	23	18	28	1.98
53213064--53213108	16	2.8	17	77	12	51	46	4	15	33	1.66
53218358--53218391	12	2.7	13	86	9	52	44	8	38	8	1.67
53225587--53225628	19	2.2	19	95	0	75	47	26	16	9	1.77
53225734--53225760	14	1.9	14	100	0	54	37	22	25	14	1.93
53233541--53233717	69	2.6	69	75	7	196	20	23	18	37	1.94
53236424--53236513	35	2.6	35	87	0	126	34	15	20	30	1.93

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