genome.fa.s1.2.7.7.80.10.50.1000.155.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  155  of  187  ( 22383 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)
46032218--46032259	2	21.0	2	100	0	84	50	0	0	50	1.00
46032977--46033059	41	2.0	41	97	0	157	39	13	19	27	1.89
46032993--46033063	21	3.4	21	67	18	67	39	12	19	28	1.88
46041075--46041193	38	3.0	38	75	12	141	52	3	6	36	1.44
46043061--46043200	69	2.0	69	98	0	271	26	8	22	42	1.82
46044026--46044092	21	3.2	20	72	12	64	41	0	2	55	1.15
46044337--46044414	30	2.6	29	80	12	77	34	11	12	41	1.80
46044816--46044875	5	12.0	5	100	0	120	60	0	0	40	0.97
46044947--46045015	36	1.9	36	82	11	88	43	5	4	46	1.47
46049095--46049120	7	3.7	7	100	0	52	11	0	0	88	0.52
46052100--46052223	43	2.9	43	92	0	203	24	17	29	28	1.97
46054654--46054726	36	2.0	36	94	0	128	31	10	21	35	1.88
46056119--46056162	21	2.1	21	100	0	88	38	9	13	38	1.77
46056118--46056173	21	2.8	19	87	10	85	37	8	16	37	1.80
46056131--46056196	23	3.0	23	82	12	77	37	6	16	39	1.74
46056162--46056206	23	2.0	23	86	4	65	33	4	15	46	1.66
46060646--46060684	19	2.0	21	85	10	55	15	10	5	69	1.34
46065980--46066053	36	2.1	36	100	0	148	37	8	10	43	1.69
46066619--46066673	25	2.2	26	86	3	76	49	1	0	49	1.11
46066687--46066732	18	2.6	18	90	10	76	47	0	2	50	1.13
46066730--46066791	21	2.9	21	78	2	70	51	0	1	46	1.10
46066949--46066973	8	3.1	8	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46069926--46069969	3	14.7	3	85	0	61	6	0	25	68	1.14
46069923--46069971	6	8.7	6	82	13	50	10	0	22	67	1.20
46074918--46074955	18	2.1	19	85	5	51	47	15	13	23	1.81
46080984--46081056	30	2.4	29	79	4	83	32	21	4	41	1.72
46081627--46081712	4	21.5	4	76	17	81	79	0	20	0	0.74
46081621--46081707	11	8.1	11	74	18	67	77	0	22	0	0.78
46081627--46081708	24	3.3	25	88	8	114	79	0	20	0	0.74
46081627--46081719	10	9.2	10	72	13	75	79	0	19	1	0.79
46082036--46082075	19	2.2	19	90	4	64	80	0	20	0	0.72
46082038--46082078	14	3.0	14	79	17	50	73	0	26	0	0.84
46082674--46082778	16	6.2	16	77	10	102	28	11	11	48	1.74
46082673--46082780	18	6.4	17	75	12	96	29	11	11	48	1.73
46090569--46091241	81	8.2	80	87	7	889	29	16	18	35	1.93
46090569--46091238	163	4.1	162	91	5	1002	29	16	18	35	1.93
46090569--46091238	246	2.7	245	90	4	1043	29	16	18	35	1.93
46091350--46091787	158	2.7	158	86	6	587	27	16	20	35	1.94
46091961--46091993	9	3.8	9	84	8	50	84	3	0	12	0.72
46091963--46091993	8	3.8	8	91	8	53	87	3	0	9	0.66
46091990--46092062	30	2.4	29	79	4	83	32	21	4	41	1.72
46092632--46092715	4	21.5	4	77	16	79	78	0	21	0	0.75
46092632--46092723	32	2.8	33	85	8	109	79	0	19	1	0.80
46092635--46092723	22	4.3	22	71	25	77	79	0	19	1	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46092626--46092710	40	2.1	40	83	12	104	76	0	23	0	0.79
46092632--46092711	11	7.0	11	82	16	76	78	0	21	0	0.75
46092632--46092722	11	8.2	10	76	13	65	79	0	19	1	0.80
46093036--46093074	17	2.2	17	90	4	60	76	0	23	0	0.78
46093605--46093709	16	6.2	16	75	10	84	28	11	11	48	1.74
46093604--46093711	18	6.4	17	73	12	78	29	11	11	48	1.73
46094457--46094496	2	20.0	2	100	0	80	50	0	0	50	1.00
46094748--46094933	41	4.5	41	96	1	295	27	19	29	23	1.98
46094694--46094933	123	2.0	123	85	9	330	28	19	28	24	1.98
46095384--46095423	2	20.0	2	100	0	80	50	0	0	50	1.00
46096011--46096049	20	1.9	21	89	5	62	69	0	5	25	1.09
46096800--46096972	9	19.5	8	71	19	71	64	4	1	30	1.22
46096828--46096861	16	2.2	15	94	5	59	67	0	0	32	0.91
46096828--46096922	29	3.4	29	79	14	87	62	2	1	34	1.14
46096830--46096900	37	1.9	38	83	11	94	61	1	1	35	1.13
46096796--46097062	19	14.5	18	68	16	104	61	3	2	32	1.29
46096990--46097052	29	2.1	30	85	8	85	63	1	3	31	1.19
46098575--46098703	65	2.0	65	95	0	231	26	13	16	43	1.85
46099523--46099563	6	7.0	6	91	2	57	26	0	4	68	1.10
46104433--46104473	20	2.0	20	85	0	55	39	17	7	36	1.77
46107718--46107767	26	2.0	25	84	4	64	56	2	10	32	1.44
46109357--46109535	95	1.9	95	92	2	306	32	22	16	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46109586--46110145	175	3.2	175	95	0	985	28	22	19	29	1.98
46109636--46110342	44	16.2	46	68	14	290	27	22	19	29	1.98
46110081--46110229	41	3.5	41	67	13	113	32	20	19	27	1.97
46109851--46110321	262	1.8	261	91	2	775	28	21	19	30	1.98
46109694--46110229	87	6.1	87	75	10	536	28	21	20	29	1.98
46109586--46110342	87	8.7	85	73	10	500	28	22	19	30	1.98
46110441--46110578	44	3.2	44	64	20	108	23	24	26	25	2.00
46110335--46110612	87	3.2	87	89	5	379	24	26	22	25	2.00
46110741--46110899	44	3.7	43	74	8	126	30	24	17	27	1.97
46110925--46111253	88	3.7	88	94	0	550	26	23	22	27	1.99
46110939--46111249	44	7.1	44	67	17	198	26	23	22	28	1.99
46112338--46112384	21	2.2	21	84	0	58	25	36	10	27	1.89
46116073--46116473	44	9.1	43	64	14	131	28	22	23	24	2.00
46116025--46117023	88	11.3	88	88	0	1406	27	24	23	24	2.00
46117248--46117696	44	10.2	44	67	12	201	29	20	22	27	1.98
46117226--46117721	175	2.8	175	94	0	875	30	19	22	27	1.98
46117772--46117950	95	1.9	95	92	2	306	27	16	22	32	1.96
46132748--46132895	41	3.6	41	91	1	226	24	27	19	28	1.99
46132748--46132944	82	2.4	82	82	9	226	24	26	19	28	1.98
46133150--46133230	34	2.4	34	79	8	85	39	16	4	39	1.70
46133976--46134013	16	2.4	16	90	0	58	44	7	13	34	1.72
46134542--46134582	12	3.0	14	79	17	50	0	26	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46134545--46134584	18	2.2	19	90	4	64	0	20	0	80	0.72
46134907--46134989	4	20.5	4	77	15	82	0	21	0	78	0.75
46134902--46134986	22	4.1	21	80	15	90	1	20	0	78	0.81
46134907--46134989	26	3.2	24	81	14	96	0	21	0	78	0.75
46134925--46134995	7	10.7	7	77	15	71	0	23	0	76	0.79
46135094--46135149	22	2.4	24	82	11	73	0	23	5	71	1.06
46139884--46139911	13	2.2	13	100	0	56	60	0	0	39	0.97
46141136--46141196	12	6.0	11	76	23	55	36	1	0	62	1.05
46144766--46145346	44	13.3	44	72	9	350	27	22	19	31	1.98
46144823--46145108	85	3.3	85	72	12	278	29	23	18	29	1.98
46144687--46145206	173	3.0	173	90	2	778	28	21	18	31	1.97
46144956--46145287	131	2.6	129	80	7	352	28	21	19	29	1.98
46145364--46145492	51	2.5	50	83	2	159	27	26	15	31	1.96
46145377--46145855	123	3.8	123	73	10	415	28	23	16	31	1.96
46145524--46145684	86	1.9	87	82	1	207	29	23	19	27	1.98
46145356--46145941	260	2.2	261	86	1	827	28	23	17	30	1.97
46145610--46145758	51	2.9	51	76	1	147	26	23	18	30	1.98
46145883--46146042	51	3.2	50	77	8	184	28	23	17	31	1.97
46146350--46146407	24	2.4	24	82	5	73	31	18	8	41	1.81
46147305--46147479	70	2.5	70	96	0	314	13	21	14	50	1.76
46164652--46164838	41	4.6	41	88	4	207	25	22	22	28	1.99
46164652--46164838	82	2.3	82	89	1	277	25	22	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46165490--46165539	2	25.5	2	87	4	75	48	4	0	48	1.20
46167814--46167902	42	2.1	42	82	0	115	46	19	21	13	1.84
46173546--46173602	16	3.6	16	95	0	87	29	0	36	33	1.58
46173848--46173882	18	2.0	17	88	5	52	54	0	0	45	0.99
46179757--46179802	18	2.6	18	83	13	67	15	17	17	50	1.79
46185570--46185605	16	2.2	16	95	0	63	22	5	0	72	1.05
46186915--46186973	21	2.8	21	72	12	57	25	1	3	69	1.13
46191346--46191393	16	2.9	17	73	17	55	79	10	0	10	0.95
46197139--46197187	18	2.6	19	78	18	57	73	2	2	22	1.04
46201629--46201767	59	2.3	60	90	3	210	35	12	23	28	1.91

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