genome.fa.s2.2.7.7.80.10.50.1000.25.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  25  of  206  ( 24623 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)
7369545--7369582	19	2.1	18	85	14	51	73	0	13	13	1.09
7372307--7372353	15	2.9	16	81	6	51	57	0	0	42	0.98
7376173--7376208	17	2.1	17	90	10	56	50	0	5	44	1.25
7391246--7391293	24	2.0	24	84	8	62	41	4	2	52	1.32
7393411--7393565	24	6.5	24	89	0	193	29	29	30	10	1.91
7404786--7404836	26	2.0	26	84	3	68	43	1	1	52	1.23
7404765--7404832	32	2.1	32	82	15	79	39	2	1	55	1.24
7407693--7408039	159	2.2	159	95	1	615	20	17	27	34	1.95
7413598--7413644	21	2.2	22	96	3	87	17	25	10	46	1.79
7423069--7423148	24	3.3	24	83	0	97	26	35	17	21	1.95
7424528--7424592	25	2.6	25	74	13	62	43	3	3	50	1.33
7429355--7429399	22	2.0	22	91	0	72	48	13	28	8	1.72
7435924--7435956	16	2.0	17	88	5	50	39	24	6	30	1.79
7437998--7438045	20	2.4	20	80	13	55	58	4	4	33	1.36
7440669--7440747	40	2.0	40	100	0	158	25	20	12	41	1.87
7440942--7440973	15	2.1	16	94	5	57	59	0	9	31	1.29
7445147--7445188	21	2.0	22	81	13	52	61	0	4	33	1.17
7445749--7445789	22	1.9	22	85	5	57	31	4	4	58	1.40
7448008--7448036	13	2.1	14	93	6	51	58	6	0	34	1.25
7462929--7462994	21	3.1	21	82	0	78	19	30	34	15	1.93
7470567--7470613	22	2.1	22	84	0	58	34	4	17	44	1.68
7472612--7472653	22	1.9	22	85	0	57	54	2	11	30	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7473053--7473110	21	2.8	21	83	0	71	20	29	12	37	1.89
7473053--7473119	21	3.2	21	77	8	64	20	26	13	38	1.90
7488374--7488460	19	4.3	19	73	21	70	37	0	5	56	1.23
7488839--7488952	59	1.9	59	98	0	219	36	10	16	35	1.83
7492755--7492826	20	3.4	21	72	24	71	58	2	5	33	1.36
7492753--7492833	41	1.9	43	95	5	148	55	4	6	33	1.46
7492755--7492828	21	3.5	21	70	25	66	58	2	5	33	1.35
7495871--7495913	15	2.9	15	96	0	77	44	23	4	27	1.73
7495906--7495938	14	2.5	14	90	9	52	33	21	3	42	1.68
7496358--7496404	24	2.0	24	84	16	62	51	14	2	31	1.55
7497120--7497158	13	2.9	13	84	3	51	25	0	2	71	0.98
7497926--7497992	26	2.7	24	76	17	73	19	1	2	76	1.00
7498009--7498050	21	2.0	21	100	0	84	28	0	14	57	1.38
7498081--7498129	16	3.1	16	75	21	50	22	6	0	71	1.08
7498455--7498597	72	2.0	72	91	2	234	29	19	16	34	1.93
7499226--7499261	18	1.9	19	88	5	56	33	27	0	38	1.57
7499621--7499664	5	8.8	5	100	0	88	59	0	0	40	0.98
7507816--7507859	20	2.2	20	88	8	63	50	0	2	47	1.13
7509546--7509679	19	6.7	21	78	10	77	40	14	6	38	1.72
7509546--7509603	22	2.6	22	81	7	64	41	17	5	36	1.72
7509582--7509692	19	5.8	19	89	0	177	37	13	9	39	1.76
7509582--7509685	38	2.7	38	98	0	199	38	12	8	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7513285--7513481	98	2.0	98	94	2	342	36	23	10	29	1.88
7514434--7514471	3	12.7	3	94	0	67	68	0	0	31	0.90
7514709--7514738	13	2.2	13	94	5	51	90	6	3	0	0.56
7521736--7521760	10	2.5	10	100	0	50	68	8	0	24	1.16
7521716--7521780	22	3.0	22	84	8	80	64	6	0	29	1.17
7522379--7522597	10	23.8	9	67	16	94	36	2	2	58	1.25
7522379--7522597	19	11.9	18	66	18	94	36	2	2	58	1.25
7522458--7522552	27	3.4	27	76	15	88	34	2	3	60	1.25
7522454--7522586	9	15.0	9	74	16	64	37	1	2	58	1.20
7524597--7524663	34	1.9	35	87	3	100	32	8	11	46	1.72
7526966--7526998	4	8.2	4	100	0	66	24	0	24	51	1.48
7527812--7527858	19	2.4	19	82	10	51	44	10	0	44	1.38
7536352--7536414	33	2.0	31	87	9	92	36	25	7	30	1.84
7537405--7537459	21	2.6	21	77	8	58	18	21	41	18	1.90
7539018--7539155	22	6.3	22	89	0	195	33	14	25	26	1.94
7544266--7544308	18	2.2	18	84	12	50	25	4	6	62	1.40
7546574--7546707	63	2.1	63	84	2	171	29	20	26	23	1.99
7549556--7549603	16	2.9	17	84	9	55	52	4	0	43	1.20
7549682--7549732	17	3.0	17	77	11	59	56	0	1	41	1.10
7549853--7549892	21	1.9	21	84	0	53	20	2	12	65	1.38
7550901--7550925	5	5.0	5	100	0	50	40	0	20	40	1.52
7552299--7552382	19	4.3	19	72	11	80	46	2	0	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7552310--7552399	20	4.6	20	75	8	94	44	1	0	54	1.07
7552303--7552417	59	1.9	60	94	1	205	42	1	1	53	1.21
7553555--7553585	14	2.3	13	94	5	53	0	22	0	77	0.77
7553543--7553583	20	2.1	20	90	4	66	0	19	2	78	0.87
7556288--7556338	15	3.5	15	69	15	52	52	15	9	21	1.71
7557970--7558010	20	2.0	20	86	9	57	43	2	21	31	1.66
7565256--7565362	10	10.5	10	70	17	60	59	3	0	36	1.15
7565254--7565350	20	4.8	20	71	17	76	60	3	0	36	1.12
7565675--7565705	2	15.0	2	93	6	53	48	0	3	48	1.17
7567148--7567194	13	3.5	14	85	5	53	29	0	0	70	0.88
7568886--7568916	2	15.5	2	100	0	62	48	0	0	51	1.00
7572869--7572920	24	2.2	23	83	10	61	25	7	1	65	1.30
7573709--7573859	77	2.0	77	97	0	284	29	14	27	27	1.95
7573728--7573857	37	3.4	38	69	11	122	32	13	30	24	1.93
7574568--7574606	16	2.4	16	86	0	51	46	2	15	35	1.60
7574832--7574857	13	2.0	13	100	0	52	61	7	0	30	1.24
7575123--7575150	5	5.6	5	100	0	56	82	0	0	17	0.68
7576241--7576287	20	2.3	21	78	10	53	10	4	23	61	1.46
7576711--7577298	44	13.7	43	68	8	268	27	21	20	31	1.98
7576804--7577305	129	3.9	129	89	0	736	27	21	20	30	1.98
7577091--7577984	227	3.9	227	93	1	1467	28	20	18	32	1.96
7577222--7577404	98	1.9	98	88	2	278	30	18	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7577326--7578073	44	16.8	43	69	14	342	28	21	17	32	1.96
7577447--7577631	98	1.9	98	92	2	309	30	19	17	32	1.95
7577675--7577857	97	1.9	98	93	3	316	30	18	18	33	1.94
7577773--7578026	128	2.0	128	88	4	379	28	20	18	32	1.96
7577957--7578116	44	3.6	44	80	7	166	26	23	22	27	2.00
7578429--7578457	14	2.1	14	100	0	58	34	6	27	31	1.83
7579415--7579449	6	5.7	6	89	3	52	14	14	2	68	1.32
7580377--7580496	6	20.2	6	82	8	68	11	10	5	72	1.26
7580379--7580520	6	23.8	6	84	5	67	12	9	7	70	1.33
7584496--7584534	16	2.4	16	91	0	60	48	2	12	35	1.55
7584796--7584821	13	2.0	13	100	0	52	61	7	0	30	1.24
7584936--7584988	20	2.7	19	72	11	54	52	1	5	39	1.36
7585092--7585119	5	5.6	5	100	0	56	82	0	0	17	0.68
7586215--7586261	20	2.3	21	78	10	53	10	4	23	61	1.46
7586846--7586893	20	2.5	20	83	10	55	10	6	4	79	1.05
7587565--7587613	11	4.3	12	78	17	52	36	2	2	59	1.21
7588347--7588383	2	18.5	2	100	0	74	51	0	0	48	1.00
7589703--7589751	11	4.5	11	80	7	55	24	26	0	48	1.51
7591750--7592161	125	3.3	125	92	1	684	29	20	17	31	1.96
7592327--7592355	9	3.3	9	95	4	51	62	31	0	6	1.22
7602159--7602189	14	2.3	13	94	5	53	61	6	6	25	1.45
7606157--7606222	29	2.2	29	78	5	69	50	10	16	22	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7606866--7606891	11	2.4	11	100	0	52	76	0	0	23	0.78
7606930--7607020	19	4.8	19	74	6	96	58	2	2	37	1.23
7606930--7607022	37	2.5	39	84	5	120	59	2	2	36	1.22
7607272--7607348	19	4.2	19	83	5	95	32	3	1	62	1.22
7607239--7607340	17	5.7	17	72	17	64	30	2	0	65	1.14
7607254--7607348	28	3.5	27	71	14	79	31	3	1	64	1.16
7607300--7607360	27	2.2	28	82	5	72	27	1	1	68	1.08
7607417--7607597	88	2.1	87	82	8	215	34	9	18	37	1.83
7613007--7613036	6	5.0	6	100	0	60	16	0	0	83	0.65
7617787--7617820	6	5.7	6	100	0	68	50	0	50	0	1.00

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