genome.fa.s9.2.7.7.80.10.50.1000.106.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  106  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)
36447079--36447120	19	2.2	19	86	0	57	19	2	50	28	1.60
36447549--36447945	73	5.4	73	66	13	242	37	22	14	25	1.92
36447613--36447849	74	3.2	74	66	12	198	36	23	13	26	1.92
36447545--36447940	147	2.7	147	94	0	695	36	23	14	26	1.93
36449476--36449501	12	2.2	12	100	0	52	46	30	15	7	1.74
36454529--36454569	21	2.0	21	85	0	55	34	2	2	60	1.23
36454663--36454705	22	2.0	22	85	0	59	13	20	23	41	1.88
36454780--36454973	43	4.5	43	86	5	266	23	31	20	24	1.98
36455701--36455729	15	1.9	15	100	0	58	27	17	20	34	1.95
36459065--36459181	40	2.9	39	82	7	137	20	20	21	37	1.94
36459087--36459198	40	2.8	40	83	6	111	20	22	21	35	1.96
36465954--36466581	44	14.2	44	71	6	347	29	19	19	31	1.97
36466026--36466360	85	3.8	86	73	9	239	29	20	18	31	1.96
36466058--36466533	129	3.6	129	81	5	521	29	20	19	30	1.97
36466336--36466578	85	2.8	86	82	4	283	30	19	20	29	1.97
36466749--36467063	45	7.1	45	75	6	318	21	23	25	29	1.99
36466748--36467299	45	12.7	43	73	11	288	24	23	23	28	1.99
36466737--36467305	89	6.5	89	76	8	490	24	23	23	29	1.99
36466737--36467301	178	3.2	178	77	7	593	24	23	23	29	1.99
36466972--36467188	121	1.8	120	82	3	283	24	24	19	30	1.98
36468396--36468487	7	13.0	7	72	18	66	2	16	0	81	0.79
36468396--36468506	10	12.4	9	78	12	90	4	14	0	81	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36468396--36468495	26	4.2	26	68	22	76	3	16	0	81	0.82
36469309--36469350	22	2.0	21	81	13	50	42	4	21	30	1.73
36474362--36474405	12	3.6	12	75	6	52	40	9	0	50	1.34
36474364--36474411	25	1.9	25	100	0	96	35	12	0	52	1.40
36487975--36488024	15	3.2	15	77	8	55	62	2	0	36	1.07
36487975--36488024	16	3.2	16	75	13	50	62	2	0	36	1.07
36487966--36488017	22	2.4	21	81	15	61	65	1	0	32	1.04
36491467--36491526	18	3.3	18	77	11	59	55	1	1	41	1.20
36491627--36491725	9	10.4	9	71	20	60	63	2	3	31	1.21
36491627--36491725	28	3.5	27	78	13	83	63	2	3	31	1.21
36491627--36491726	10	10.4	10	68	12	50	64	2	3	31	1.20
36491692--36491740	20	2.4	20	82	3	53	61	0	6	32	1.21
36497996--36498027	16	2.0	16	100	0	64	25	31	6	37	1.81
36501253--36501284	13	2.4	14	85	15	50	62	12	0	25	1.30
36501263--36501370	39	2.8	39	94	1	182	47	12	9	30	1.73
36501480--36501552	36	2.0	36	83	0	92	26	27	17	28	1.98
36506011--36506052	22	2.0	22	86	9	61	42	16	4	35	1.69
36506672--36506703	13	2.4	14	85	15	50	62	12	0	25	1.30
36506682--36506796	39	3.0	38	90	1	176	49	12	6	31	1.66
36506791--36506816	9	2.9	9	100	0	52	69	11	0	19	1.18
36510486--36510532	25	1.9	24	82	4	58	53	10	17	19	1.72
36511737--36511811	33	2.3	33	88	6	116	44	13	6	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36513602--36513635	12	2.8	12	100	0	68	5	17	5	70	1.28
36513581--36513623	18	2.3	18	88	11	61	4	20	2	72	1.14
36515584--36515634	25	2.1	24	81	3	57	50	11	15	21	1.76
36516901--36516967	32	2.1	32	86	5	91	26	10	10	52	1.68
36531847--36531907	30	2.0	30	93	0	104	37	22	22	16	1.93
36535995--36537039	524	2.0	523	95	0	1883	31	16	22	29	1.96
36541607--36541952	51	6.8	50	75	4	327	29	14	26	28	1.95
36541603--36541945	102	3.4	101	93	1	569	29	14	26	28	1.95
36548843--36548880	18	2.1	19	95	5	69	28	34	10	26	1.90
36553524--36553570	13	3.5	13	91	2	67	8	6	4	80	1.00
36553524--36553570	14	3.4	14	88	8	62	8	6	4	80	1.00
36562396--36562431	19	1.9	19	88	5	56	44	8	11	36	1.70
36565684--36565865	54	3.6	50	80	6	181	28	20	25	24	1.99
36565684--36565874	50	3.7	53	78	9	184	27	20	25	26	1.99
36594886--36594946	23	2.6	24	84	5	88	37	29	4	27	1.78
36599299--36599723	208	2.0	210	92	1	710	35	20	11	32	1.89
36601248--36601304	16	3.6	16	95	0	87	29	0	36	33	1.58
36619149--36619210	30	2.1	30	87	6	90	19	19	25	35	1.95
36619325--36619396	37	1.9	37	88	0	108	33	6	20	38	1.80
36621264--36621334	33	2.2	33	80	7	83	49	4	7	39	1.49
36622011--36622138	65	2.0	65	87	6	188	46	8	7	36	1.63
36624269--36624516	50	4.8	50	85	6	293	27	22	28	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36633290--36633535	50	4.8	52	80	7	270	26	22	29	21	1.99
36637533--36641318	759	5.0	761	88	2	5428	29	25	11	33	1.91
36644217--36644359	77	1.9	76	91	1	232	23	10	20	45	1.82
36646369--36646463	41	2.3	41	98	0	181	28	21	27	23	1.99
36653845--36654017	41	4.2	41	93	0	301	27	19	28	23	1.98
36661415--36661451	9	4.1	9	85	0	56	32	10	10	45	1.74
36661503--36661533	9	3.4	9	90	0	53	38	22	12	25	1.90
36662283--36662334	20	2.6	20	87	0	77	53	0	25	21	1.45
36662284--36662340	20	2.8	19	84	10	69	50	0	28	21	1.48
36666578--36666652	32	2.4	31	80	8	80	22	38	16	22	1.92
36676716--36676852	71	1.9	71	87	0	202	33	21	17	27	1.96
36677841--36677893	19	2.8	19	77	11	54	47	7	1	43	1.42
36682952--36682986	15	2.4	14	90	4	52	37	0	42	20	1.52
36685815--36685865	25	2.1	24	92	3	84	21	25	3	49	1.67
36698406--36698610	68	3.0	68	96	0	365	18	31	14	35	1.91
36702690--36702805	39	2.9	39	90	1	169	31	2	22	43	1.67
36712751--36712814	30	2.2	29	81	10	76	29	28	6	35	1.82
36712758--36712814	30	1.9	30	85	3	80	29	24	7	38	1.82
36721983--36722009	13	2.1	13	100	0	54	44	7	7	40	1.60
36726651--36726698	11	4.5	11	80	12	55	27	2	0	70	0.98
36726651--36726699	22	2.2	22	88	0	71	26	2	0	71	0.97
36726651--36726704	10	5.1	10	78	12	54	27	1	1	68	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36727905--36727943	18	2.3	16	86	8	51	30	7	0	61	1.24
36728961--36729060	31	3.3	31	90	2	141	19	15	14	52	1.75
36728985--36729086	31	3.4	29	77	13	91	22	13	13	50	1.77
36729236--36729275	21	2.0	20	85	5	53	57	0	37	5	1.21
36731458--36731482	13	1.9	13	100	0	50	40	28	0	32	1.57
36735348--36735405	30	2.0	28	86	6	80	55	1	0	43	1.10
36735386--36735477	37	2.5	37	89	1	130	48	2	1	47	1.20
36735595--36735648	16	3.4	16	77	10	65	33	22	1	42	1.64
36737654--36737696	17	2.5	17	88	3	68	72	0	0	27	0.85
36737654--36737712	17	3.3	18	80	7	57	69	3	0	27	1.04
36737714--36737765	18	3.0	17	78	10	52	63	1	0	34	1.06
36737714--36737757	17	2.6	16	80	13	52	63	2	0	34	1.07
36738126--36738249	11	11.2	11	73	20	98	40	2	0	57	1.12
36738074--36738185	38	3.0	38	87	7	160	36	2	0	60	1.11
36738126--36738269	50	2.9	50	93	5	240	40	2	0	56	1.11
36738171--36738269	39	2.5	39	88	6	139	40	2	0	57	1.10
36738158--36738268	11	11.3	9	76	16	55	41	1	0	56	1.09
36739107--36739197	41	2.2	41	92	1	148	31	18	5	43	1.73
36749965--36750211	132	1.9	132	84	0	332	28	23	17	30	1.97
36757463--36757534	21	3.4	21	84	3	99	34	8	23	33	1.85
36760087--36760133	16	3.0	16	79	14	53	80	4	0	14	0.85
36760082--36760128	23	2.0	25	84	16	64	76	4	0	19	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36760214--36760264	26	1.9	27	92	4	86	41	41	3	13	1.63
36760644--36760711	20	3.6	19	79	11	68	1	23	5	69	1.19
36761395--36761440	24	1.9	24	81	0	56	34	8	4	52	1.52
36761704--36761781	28	2.8	28	84	7	104	32	11	1	55	1.44
36774148--36774557	44	9.4	44	66	13	125	32	18	19	29	1.96
36774096--36774794	175	4.1	175	89	4	1077	32	19	19	28	1.96
36774483--36774788	161	1.9	162	91	2	508	33	18	19	28	1.95
36774833--36774963	50	2.6	51	67	13	119	32	22	19	25	1.97
36775185--36775237	28	1.9	27	85	11	72	77	3	0	18	0.92
36776495--36776540	24	1.9	24	81	0	56	34	8	4	52	1.52

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