genome.fa.s9.2.7.7.80.10.50.1000.160.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  160  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)
51510855--51510983	45	2.9	45	84	1	161	30	17	21	30	1.97
51512036--51512107	31	2.3	32	83	7	94	40	6	1	51	1.37
51512158--51512216	16	3.6	16	77	4	64	37	10	1	50	1.46
51512295--51512367	37	2.0	37	86	5	105	30	10	4	54	1.54
51513407--51513540	72	1.9	72	85	6	191	35	14	18	31	1.92
51514099--51514169	35	2.0	35	89	5	108	54	5	11	28	1.58
51514243--51514304	16	3.8	16	80	4	79	53	1	8	37	1.40
51514464--51514535	2	36.5	2	82	8	76	47	2	4	45	1.36
51514628--51514658	3	10.3	3	100	0	62	67	0	0	32	0.91
51516744--51516783	20	2.0	20	90	0	62	25	2	0	72	0.97
51516746--51516775	14	2.1	14	93	0	51	23	0	0	76	0.78
51519020--51519090	32	2.2	33	82	10	92	60	0	4	35	1.16
51519494--51519551	31	1.9	31	86	10	84	43	0	1	55	1.10
51523680--51523774	45	2.1	45	98	0	181	45	6	25	23	1.76
51528783--51528831	7	6.9	7	76	4	53	20	0	30	48	1.50
51531343--51531398	29	1.9	29	85	0	76	28	14	19	37	1.91
51531340--51531403	29	2.2	28	78	5	74	28	15	17	39	1.90
51531647--51531899	124	2.0	123	86	3	348	30	15	23	30	1.95
51535229--51535453	23	8.7	23	74	20	171	32	1	23	43	1.62
51535262--51535470	29	7.6	29	73	18	148	31	1	22	44	1.62
51535250--51535470	28	8.1	28	78	14	203	32	1	22	43	1.61
51535250--51535453	51	3.8	51	84	6	255	32	0	22	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51537616--51537649	15	2.3	15	90	5	52	67	5	0	26	1.13
51537891--51537932	22	1.9	22	90	0	66	33	0	33	33	1.58
51537933--51538003	22	3.2	22	88	7	99	36	2	26	33	1.71
51538317--51538496	61	2.9	60	80	5	157	41	16	6	35	1.74
51558595--51558660	33	2.0	33	96	0	123	43	6	28	21	1.76
51558902--51558933	3	10.7	3	100	0	64	34	34	31	0	1.58
51574341--51574387	24	2.0	24	87	8	69	42	2	0	55	1.12
51575647--51575713	33	2.0	33	88	0	98	35	17	28	17	1.93
51583529--51583571	21	2.0	21	100	0	86	53	18	0	27	1.45
51583856--51583887	16	2.0	16	100	0	64	25	6	6	62	1.42
51586485--51586639	66	2.3	65	78	7	152	20	14	27	37	1.92
51593953--51593982	14	2.1	14	93	0	51	23	0	0	76	0.78
51596208--51596271	27	2.5	25	80	9	74	64	0	3	32	1.10
51601468--51601501	2	17.0	2	100	0	68	50	0	0	50	1.00
51607388--51607516	68	1.9	68	91	0	213	24	16	14	44	1.85
51607394--51607531	68	2.0	68	87	2	197	27	15	13	43	1.84
51611035--51611066	14	2.3	14	94	0	55	50	9	6	34	1.60
51612829--51612941	58	1.9	58	84	7	149	33	22	23	20	1.97
51612819--51612949	58	2.3	59	77	6	142	32	22	25	19	1.98
51615949--51616128	61	2.9	60	81	5	166	42	16	5	36	1.71
51644553--51644577	12	2.1	12	100	0	50	32	8	16	44	1.76
51650079--51650131	26	2.0	28	85	7	74	45	13	20	20	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51653172--51653247	40	1.9	40	86	5	109	22	25	19	32	1.97
51659347--51659394	11	4.1	11	75	15	51	52	2	0	45	1.12
51667477--51667519	22	2.0	22	95	0	77	9	20	27	41	1.83
51667657--51667964	43	7.2	43	84	5	167	21	18	28	31	1.97
51667688--51668034	43	8.1	43	85	6	422	20	18	27	33	1.96
51667718--51668034	86	3.7	86	94	2	532	18	18	28	34	1.95
51667964--51668089	43	2.9	43	83	2	128	25	26	22	26	2.00
51667683--51668078	129	3.1	129	82	4	347	21	20	27	31	1.98
51667718--51668121	129	3.1	128	82	3	310	21	21	25	31	1.98
51674137--51674169	16	2.1	16	94	0	57	30	0	18	51	1.46
51674205--51674590	9	44.8	9	67	20	118	37	3	15	44	1.62
51674207--51674303	16	5.8	16	77	9	88	34	1	20	44	1.59
51674207--51674301	34	2.8	32	78	12	93	33	1	21	44	1.59
51674227--51674337	50	2.2	50	82	3	125	37	1	16	44	1.58
51674401--51674468	16	4.2	16	96	0	118	33	0	22	44	1.53
51674399--51674463	7	8.4	7	75	18	58	32	0	23	44	1.53
51674387--51674467	23	3.4	23	73	9	83	30	0	23	45	1.53
51674363--51674490	48	2.7	47	75	12	120	35	1	17	46	1.58
51674448--51674590	34	4.5	31	76	11	146	39	4	12	44	1.62
51674463--51674591	65	2.0	65	98	0	249	39	5	10	44	1.63
51674234--51674550	165	1.9	167	85	6	439	37	3	14	44	1.62
51678948--51679228	41	6.8	41	84	2	321	35	24	24	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51679287--51679384	40	2.5	39	72	6	90	20	27	21	30	1.98
51681129--51681280	67	2.2	66	75	5	144	27	18	22	31	1.97
51681885--51682081	90	2.2	91	80	8	213	42	16	8	32	1.77
51682153--51682199	21	2.3	21	88	3	78	29	19	14	36	1.92
51682201--51682444	89	2.7	89	83	5	289	36	11	18	33	1.86
51683902--51683966	33	2.0	33	87	6	96	46	1	0	52	1.10
51686595--51686647	26	2.0	28	88	7	83	45	11	20	22	1.83
51688397--51688422	13	2.0	13	100	0	52	38	7	7	46	1.61
51688578--51688622	22	2.0	22	87	8	65	40	0	2	57	1.11
51696816--51697093	41	6.8	41	75	7	210	16	23	23	37	1.94
51696819--51697058	82	2.9	82	84	1	320	16	22	23	37	1.93
51697227--51697254	2	14.0	2	100	0	56	50	0	0	50	1.00
51699364--51699400	10	3.7	10	92	0	65	43	0	13	43	1.44
51712884--51713030	66	2.2	66	85	4	190	40	16	29	13	1.86
51713012--51713113	21	4.9	21	85	0	123	34	17	43	4	1.71
51713421--51713730	43	7.2	43	77	5	225	24	18	29	26	1.98
51713421--51713730	86	3.6	85	76	5	275	24	18	29	26	1.98
51713653--51713753	43	2.4	43	83	5	125	28	28	21	20	1.98
51713871--51713908	15	2.5	15	95	0	67	15	31	28	23	1.96
51713925--51713967	22	2.0	22	90	0	68	44	27	18	9	1.80
51715396--51715507	27	3.8	32	85	14	145	20	1	33	44	1.62
51715804--51715844	21	2.0	21	85	9	57	58	2	14	24	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51720825--51720889	28	2.3	28	86	2	94	36	9	3	50	1.50
51721620--51721667	18	2.6	20	71	18	50	41	4	0	54	1.20
51722991--51723053	30	2.0	32	84	6	85	52	22	1	23	1.56
51726077--51726123	21	2.2	22	92	3	78	21	38	19	21	1.94
51732824--51732870	8	5.6	8	80	9	58	0	27	0	72	0.85
51734645--51734756	6	18.7	6	80	0	107	47	12	16	23	1.81
51734620--51734768	18	8.6	18	71	10	94	47	10	16	25	1.78
51734725--51734768	6	7.3	6	84	0	52	47	6	18	27	1.73
51738596--51738712	44	2.7	44	80	9	132	29	27	19	23	1.98
51739623--51739666	15	3.1	14	80	12	54	43	6	0	50	1.29
51741847--51741887	13	3.1	13	86	6	55	58	0	0	41	0.98
51742657--51742718	20	3.2	20	93	2	108	27	9	16	46	1.78
51744041--51744133	32	2.9	32	91	0	150	51	17	4	26	1.63
51744133--51744189	16	3.5	16	72	11	53	49	17	1	31	1.57
51744938--51744966	14	2.1	14	100	0	58	6	48	13	31	1.69
51749964--51750021	22	2.7	21	82	15	73	37	25	13	22	1.91
51753382--51753406	11	2.3	11	100	0	50	20	16	28	36	1.93
51765363--51765401	20	1.9	21	84	5	53	58	5	10	25	1.51
51765513--51765565	23	2.4	21	81	9	61	54	0	0	45	0.99
51765519--51765565	23	2.1	22	88	4	67	59	0	0	40	0.97
51765623--51765655	16	2.1	16	88	11	50	45	0	0	54	0.99
51768407--51768461	23	2.4	24	79	14	62	25	1	7	65	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51777654--51777695	21	2.0	21	86	13	59	35	0	2	61	1.09
51777656--51777722	23	3.0	22	77	20	57	34	0	2	62	1.10
51780347--51780378	9	3.8	9	84	16	50	59	0	9	31	1.29
51781724--51781756	17	1.9	17	93	0	57	15	0	9	75	1.03
51782790--51782840	20	2.5	20	77	0	57	41	3	0	54	1.19
51783244--51783296	16	3.5	16	69	23	51	66	5	1	26	1.25
51783378--51783425	24	2.0	24	95	0	87	31	8	10	50	1.66
51788277--51788329	26	2.0	28	88	7	83	22	20	11	45	1.83
51790554--51790582	14	2.1	14	100	0	58	27	13	20	37	1.91
51792807--51792834	10	2.8	10	100	0	56	60	0	0	39	0.97

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