genome.fa.s10.2.7.7.80.10.50.1000.53.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  53  of  202  ( 24201 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)
15747479--15747565	34	2.4	36	90	9	133	25	1	0	73	0.90
15747487--15747543	16	3.4	17	78	7	71	26	0	0	73	0.83
15747525--15747554	11	2.6	11	94	5	51	36	3	0	60	1.14
15753611--15753635	12	2.1	12	100	0	50	36	16	8	40	1.77
15760554--15760617	27	2.4	27	100	0	128	29	3	0	67	1.06
15760554--15760634	27	3.0	27	89	1	74	27	2	3	66	1.21
15774636--15774860	123	1.8	124	94	0	398	29	16	21	32	1.96
15777873--15778229	116	3.1	116	95	1	637	43	7	8	40	1.64
15778223--15778748	23	23.1	22	79	14	513	26	0	24	48	1.53
15778234--15778748	45	11.3	43	78	14	426	26	0	25	48	1.53
15778223--15778751	68	7.8	69	80	12	528	26	0	24	48	1.53
15778570--15778598	15	2.0	15	93	6	51	20	0	27	51	1.47
15778794--15778841	25	1.9	25	95	0	87	39	12	2	45	1.54
15779274--15779309	18	2.0	18	94	0	63	38	8	27	25	1.84
15779960--15779984	7	3.6	7	100	0	50	60	12	0	28	1.32
15780150--15780193	20	2.1	21	84	12	56	50	6	0	43	1.29
15781134--15781175	11	3.8	11	90	0	66	50	7	21	21	1.72
15781179--15781218	11	3.6	11	86	6	55	45	0	32	22	1.53
15791213--15791308	48	2.0	48	100	0	192	39	16	4	39	1.68
15791213--15791334	48	2.6	46	86	8	115	43	16	4	36	1.67
15793318--15793369	16	3.2	16	100	0	104	25	0	36	38	1.56
15793492--15793802	153	2.0	155	91	2	509	43	4	5	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15793738--15793779	15	2.7	16	82	14	52	52	2	0	45	1.13
15793747--15793788	15	2.9	15	82	10	52	52	0	0	47	1.00
15793856--15793902	15	3.3	15	82	11	55	53	2	0	44	1.12
15793976--15794027	15	3.6	15	80	12	56	53	1	0	44	1.11
15793741--15794152	120	3.4	120	95	2	715	49	5	2	42	1.39
15794148--15794376	92	2.5	92	82	8	227	48	4	3	44	1.40
15797387--15797413	11	2.5	11	100	0	54	25	0	25	48	1.52
15797505--15797737	97	2.4	97	97	0	439	38	6	13	41	1.71
15798270--15798308	17	2.3	17	100	0	78	61	10	0	28	1.28
15799506--15799534	8	3.6	8	100	0	58	41	48	0	10	1.37
15801423--15801457	14	2.5	14	95	0	61	57	0	14	28	1.38
15813319--15813354	17	2.1	16	90	10	54	44	0	5	50	1.25
15817007--15817032	13	2.0	13	100	0	52	46	7	0	46	1.31
15819161--15819192	16	1.9	17	93	6	57	40	6	0	53	1.26
15822270--15822347	8	9.8	8	69	14	54	79	1	3	15	0.94
15822270--15822347	10	7.5	10	75	19	63	79	1	3	15	0.94
15822270--15822338	12	6.3	11	77	15	72	79	1	2	15	0.92
15822277--15822337	23	2.6	22	85	12	70	78	1	3	16	0.96
15823876--15823973	40	2.5	41	88	6	148	31	21	22	24	1.98
15832016--15832061	24	1.9	24	86	0	65	13	26	15	45	1.82
15836342--15836397	12	4.7	11	76	20	51	78	0	3	17	0.89
15836345--15836404	22	2.7	22	82	12	61	78	0	5	16	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15838471--15838504	18	2.0	16	88	11	50	58	0	8	32	1.29
15840931--15840986	24	2.4	23	80	11	60	62	0	7	30	1.22
15844234--15844290	24	2.3	24	87	6	87	22	8	17	50	1.73
15845300--15845349	24	2.1	24	96	0	91	40	18	16	26	1.90
15845899--15845986	45	2.0	44	86	6	124	36	30	3	29	1.74
15845976--15846051	16	4.8	16	90	3	109	19	34	6	39	1.78
15845969--15846051	32	2.6	32	84	7	123	20	33	7	38	1.80
15846094--15846140	16	2.9	16	96	0	85	40	2	31	25	1.68
15846095--15846147	16	3.3	16	84	10	72	39	3	32	24	1.73
15846129--15846221	44	2.1	44	90	6	143	31	5	30	33	1.80
15846281--15846433	22	7.0	22	90	0	225	32	14	26	26	1.94
15846475--15846515	13	3.2	12	80	12	55	58	0	0	41	0.98
15846459--15846515	26	2.1	28	87	9	82	59	0	1	38	1.08
15846505--15846945	120	3.7	120	98	0	832	53	4	0	41	1.28
15846910--15846952	21	2.0	21	91	8	70	60	4	0	34	1.17
15846900--15846957	21	2.5	22	81	18	66	53	6	1	37	1.38
15850249--15850307	29	2.0	29	100	0	118	30	23	11	33	1.91
15850763--15850797	18	2.0	17	88	5	52	54	0	0	45	0.99
15850650--15850961	157	2.0	152	91	3	507	44	3	4	47	1.40
15850708--15851039	157	2.1	158	77	10	331	47	4	3	44	1.39
15856014--15856056	22	2.0	22	81	9	52	46	4	4	44	1.45
15857580--15857619	21	1.9	21	85	10	55	27	5	7	60	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15857617--15857666	25	2.0	25	84	3	66	10	0	14	76	1.03
15862509--15862640	66	2.0	66	100	0	264	31	16	13	37	1.88
15863888--15863932	19	2.3	20	92	7	67	22	8	17	51	1.73
15863893--15863932	19	2.1	19	100	0	80	20	10	17	52	1.72
15875508--15875747	107	2.2	107	83	1	302	27	18	23	30	1.98
15888380--15888416	9	4.1	9	85	0	56	43	16	10	29	1.82
15888780--15888826	20	2.3	20	78	7	51	23	36	0	40	1.55
15895368--15895423	19	2.8	20	81	13	62	64	0	0	35	0.94
15897135--15897163	12	2.3	13	94	5	51	72	3	0	24	1.00
15898659--15898724	34	1.9	34	84	6	89	28	22	19	28	1.98
15899186--15899519	27	12.4	27	84	0	400	18	14	21	45	1.85
15902203--15902309	17	6.2	17	77	4	79	47	17	8	26	1.76
15902825--15902908	35	2.5	34	82	3	98	45	9	3	41	1.54
15903059--15903120	27	2.2	28	85	8	90	48	17	3	30	1.63
15904601--15904667	32	2.1	32	86	8	93	37	5	0	56	1.24
15906829--15906940	40	2.8	41	82	10	133	38	1	0	59	1.08
15906920--15906952	11	2.9	11	95	4	57	51	3	0	45	1.16
15906936--15906975	21	1.9	21	84	0	53	40	2	0	57	1.12
15907332--15907441	55	2.0	55	92	0	184	32	10	10	47	1.70
15907820--15907855	18	2.0	18	88	0	54	61	0	0	38	0.96
15907810--15907862	10	5.1	11	77	15	51	60	0	1	37	1.08
15911087--15911136	25	2.0	26	84	11	68	34	4	8	54	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15911629--15911762	66	2.0	66	100	0	268	27	18	26	26	1.98
15911698--15912006	123	2.5	125	96	1	568	29	16	22	30	1.96
15912405--15912706	18	18.7	18	66	28	164	23	0	28	48	1.52
15912375--15912464	30	3.0	30	95	0	153	21	0	28	50	1.49
15912453--15912534	29	2.8	29	96	0	146	23	0	30	46	1.53
15912405--15912706	47	6.3	47	76	15	194	23	0	28	48	1.52
15912375--15912581	76	2.7	76	96	1	369	23	0	29	47	1.52
15912576--15912652	24	2.8	29	81	18	119	24	0	29	45	1.54
15912702--15912770	25	2.7	25	81	2	84	39	10	2	47	1.52
15913860--15913884	7	3.6	7	100	0	50	60	12	0	28	1.32
15915022--15915087	10	6.5	10	75	3	60	65	0	0	34	0.93
15915022--15915086	31	2.1	31	100	0	130	66	0	0	33	0.92
15915022--15915073	21	2.5	20	75	6	59	69	0	0	30	0.89
15915111--15915194	29	3.1	29	62	22	74	41	0	28	29	1.56
15915088--15915200	51	2.2	51	96	0	208	41	0	30	28	1.56
15915172--15915222	22	2.3	22	100	0	102	39	0	33	27	1.57
15916255--15916300	21	2.3	20	78	10	58	52	2	4	41	1.33
15917668--15917712	20	2.3	19	85	11	56	46	13	6	33	1.69
15919688--15919782	50	1.9	50	95	0	172	52	9	14	23	1.71
15919749--15919808	29	2.1	29	100	0	120	46	10	16	26	1.78
15921004--15921061	20	2.9	20	78	17	66	10	25	20	43	1.84
15923483--15923516	17	1.9	18	94	5	61	52	14	5	26	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15944997--15945144	28	5.4	28	75	9	124	54	4	15	25	1.60
15944997--15945144	55	2.7	56	73	11	144	54	4	15	25	1.60
15947004--15947069	25	2.6	25	82	0	96	37	0	4	57	1.19
15952187--15952388	28	7.2	27	75	7	145	51	4	18	25	1.65
15952198--15952388	56	3.4	56	72	6	179	52	4	18	24	1.64
15952198--15952388	84	2.3	84	77	6	215	52	4	18	24	1.64
15967083--15967258	50	3.4	50	83	6	192	26	22	29	21	1.99
15975095--15975138	22	2.2	19	84	12	52	56	9	15	18	1.65
15976631--15976728	26	3.7	26	76	4	88	55	3	15	26	1.55
15979665--15979919	44	5.8	44	84	2	334	31	20	26	21	1.98

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