genome.fa.s9.2.7.7.80.10.50.1000.127.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  127  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)
42785702--42785753	26	2.0	26	84	0	68	13	21	25	40	1.89
42792199--42792229	14	2.3	14	94	5	55	0	38	0	61	0.96
42793071--42793181	27	4.1	27	81	3	127	39	21	18	20	1.92
42793071--42793190	54	2.2	53	85	4	152	40	20	17	21	1.92
42793363--42793412	26	1.9	26	91	0	82	12	28	24	36	1.91
42793962--42794004	20	2.2	20	95	0	77	46	11	16	25	1.80
42803081--42803163	25	3.4	24	79	3	67	24	21	24	30	1.99
42806187--42806228	21	2.0	21	86	4	59	21	26	9	42	1.83
42818721--42818754	11	3.1	11	86	0	50	44	26	8	20	1.81
42824685--42824839	81	1.9	81	95	0	283	37	11	14	36	1.83
42828569--42828833	27	9.8	27	86	0	332	40	21	19	18	1.91
42831941--42831966	13	2.0	13	100	0	52	30	15	23	30	1.95
42845467--42845552	35	2.5	33	81	9	93	33	16	25	24	1.95
42845469--42845718	105	2.5	101	79	10	267	33	17	25	24	1.96
42845659--42845731	33	2.2	33	80	0	83	35	17	26	20	1.95
42854342--42854396	20	2.7	21	83	5	69	12	32	20	34	1.90
42856851--42856897	15	3.1	16	82	17	64	17	46	0	36	1.48
42856862--42856903	19	2.2	19	86	0	57	14	47	0	38	1.44
42867613--42867846	50	4.7	49	88	3	324	20	29	22	26	1.98
42868183--42868240	30	1.9	31	82	6	75	27	22	6	43	1.79
42871186--42871229	18	2.4	18	85	7	63	47	20	2	29	1.62
42871201--42871262	31	2.0	31	84	12	83	46	24	1	27	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42874939--42874965	13	2.1	13	100	0	54	29	0	7	62	1.22
42875065--42875257	50	3.8	50	89	0	287	25	21	31	21	1.98
42878544--42878582	2	19.5	2	83	0	51	7	0	43	48	1.31
42878544--42878581	8	4.8	8	96	0	67	7	0	42	50	1.31
42882598--42882633	14	2.5	15	90	9	65	36	36	22	5	1.78
42884583--42884607	13	1.9	13	100	0	50	40	16	0	44	1.47
42886518--42886572	23	2.4	22	79	8	56	16	10	3	69	1.32
42888118--42888151	14	2.5	14	95	4	61	50	35	0	14	1.44
42893388--42893426	19	2.1	19	95	4	71	53	5	10	30	1.56
42893471--42893503	14	2.4	14	94	0	57	24	6	0	69	1.10
42895630--42895666	3	12.3	3	100	0	74	32	0	0	67	0.91
42896230--42896301	22	3.3	22	94	0	117	25	27	16	30	1.97
42900568--42900695	63	2.0	62	90	1	202	29	11	19	39	1.87
42901823--42901856	17	2.0	17	100	0	68	52	11	11	23	1.70
42903756--42903790	2	17.5	2	100	0	70	48	0	0	51	1.00
42903992--42904037	12	3.6	13	91	5	51	45	2	0	52	1.13
42904002--42904039	12	3.2	12	96	0	67	47	0	0	52	1.00
42905854--42905878	10	2.5	10	100	0	50	32	0	0	68	0.90
42924720--42924956	50	4.7	50	86	2	305	26	22	28	21	1.99
42925205--42925243	12	3.2	12	85	0	51	51	5	23	20	1.67
42930036--42930156	40	3.0	40	90	0	188	35	19	31	14	1.91
42929988--42930156	80	2.1	80	85	0	221	32	18	33	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42930071--42930133	20	3.2	20	74	17	76	34	20	31	12	1.90
42930046--42930149	20	5.2	20	65	17	63	36	17	31	14	1.90
42940934--42941107	50	3.5	50	82	3	206	21	27	21	28	1.99
42947040--42947082	22	2.0	22	81	9	52	37	20	11	30	1.89
42950620--42950766	43	3.4	43	75	0	159	21	12	23	42	1.87
42966853--42966877	2	12.5	2	100	0	50	0	0	48	52	1.00
42969079--42969116	20	2.0	20	94	5	69	36	5	0	57	1.21
42974998--42975070	34	2.1	34	82	9	87	32	10	16	39	1.83
42975010--42975075	34	1.9	34	90	6	107	30	12	15	42	1.83
42975022--42975107	34	2.5	34	83	3	93	30	12	13	43	1.82
42975265--42975348	25	3.4	25	69	12	73	38	23	14	23	1.92
42977366--42977413	12	3.8	12	83	8	60	54	0	8	37	1.31
42979017--42979111	30	3.2	30	77	5	102	21	29	34	14	1.93
42981455--42981507	28	2.0	27	85	7	72	43	15	0	41	1.46
42981666--42981857	57	3.1	62	76	15	202	28	17	6	47	1.72
42981665--42981857	63	3.3	57	74	15	187	27	17	6	48	1.72
42987721--42987760	21	1.9	21	94	0	71	65	0	2	32	1.06
42995238--42995295	29	1.9	31	83	13	77	53	8	15	22	1.69
42995683--42995720	20	2.1	19	85	14	53	52	0	2	44	1.14
42997956--42997984	12	2.3	13	94	5	51	48	0	0	51	1.00
42998001--42998041	2	21.5	2	90	9	68	51	0	0	48	1.00
43012389--43012422	17	2.1	17	88	5	52	32	17	0	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43014430--43014980	274	2.0	274	93	0	933	35	16	21	27	1.94
43021549--43021650	28	3.6	28	95	0	177	31	12	25	30	1.93
43022383--43022778	23	17.0	23	75	12	299	28	15	17	39	1.90
43022377--43022800	93	4.5	93	93	2	706	28	15	17	38	1.90
43022377--43022802	46	9.1	45	78	7	429	28	15	17	38	1.90
43027040--43027086	20	2.3	20	100	0	94	31	8	31	27	1.87
43027363--43027392	9	3.3	9	90	0	51	60	26	0	13	1.34
43027363--43027402	18	2.4	17	91	8	64	57	30	0	12	1.36
43041108--43041260	9	16.0	9	65	21	55	32	2	3	60	1.28
43041135--43041183	21	2.4	21	89	3	73	38	4	4	53	1.39
43041211--43041236	11	2.4	11	100	0	52	26	0	0	73	0.84
43041127--43041302	10	18.1	10	67	14	68	32	2	3	61	1.27
43043994--43044255	127	2.1	127	93	0	443	30	16	22	29	1.96
43045346--43045438	20	4.8	19	69	23	61	41	1	3	53	1.24
43045432--43045548	62	1.9	59	87	5	171	41	4	4	50	1.41
43046224--43046308	27	3.1	27	81	1	89	18	30	22	28	1.97
43050766--43050842	33	2.3	33	84	4	102	15	23	12	48	1.80
43050924--43051061	58	2.4	58	81	2	143	21	26	13	38	1.90
43054768--43054810	23	1.9	23	86	13	63	39	23	0	37	1.55
43056204--43056253	25	2.0	25	92	0	82	40	14	6	40	1.70
43064803--43064834	16	2.0	16	93	0	55	34	28	6	31	1.82
43068553--43068585	14	2.5	13	90	9	50	39	27	9	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43068552--43068739	51	3.7	52	87	4	267	33	27	14	24	1.95
43070872--43070917	24	1.9	24	90	0	74	39	2	8	50	1.46
43072832--43073071	50	4.8	50	82	1	241	22	27	21	28	1.99
43075172--43075223	24	2.2	24	85	0	68	34	3	9	51	1.53
43075777--43075871	31	2.9	32	77	13	95	36	1	7	54	1.35
43080563--43080647	42	2.0	42	100	0	170	27	23	7	42	1.80
43081117--43081148	6	5.3	6	100	0	64	15	68	0	15	1.21
43083685--43083719	16	2.2	16	89	0	52	0	28	0	71	0.86
43084280--43084333	24	2.2	25	83	3	65	29	9	12	48	1.73
43087116--43087193	40	2.0	40	89	0	120	28	21	12	37	1.90
43088462--43088508	25	1.9	24	86	4	67	40	21	23	14	1.90
43088464--43088571	24	4.5	24	77	5	94	39	17	23	19	1.92
43088614--43088674	26	2.3	26	86	5	79	34	22	26	16	1.95
43094980--43096379	707	2.0	710	85	2	1920	30	20	14	34	1.93
43099716--43099755	20	2.1	19	90	4	62	55	5	0	40	1.22
43100471--43100664	88	2.2	88	88	3	284	37	20	10	31	1.86
43100793--43100878	8	9.6	8	70	20	55	67	2	3	26	1.19
43100771--43100888	9	12.6	9	71	10	76	65	1	4	28	1.21
43100792--43100888	19	5.2	19	82	3	99	68	2	3	26	1.16
43100792--43100897	56	1.9	55	88	2	149	66	1	2	29	1.17
43100885--43100929	21	2.1	21	84	8	56	57	2	11	28	1.45
43101104--43101175	18	3.8	19	72	7	65	36	4	0	59	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43101249--43101423	91	1.9	92	85	3	246	32	9	22	36	1.87
43104715--43104790	24	3.2	23	76	9	73	48	0	1	50	1.09
43104729--43104772	12	3.7	11	80	14	52	52	0	2	45	1.13
43104752--43104789	14	2.4	17	87	12	55	47	0	0	52	1.00
43105008--43105039	17	2.0	17	88	11	50	62	15	21	0	1.32
43105223--43105254	12	2.7	12	100	0	64	37	0	18	43	1.51
43105719--43105774	3	18.7	3	100	0	112	33	0	0	66	0.92
43108900--43108993	45	2.1	45	87	0	134	29	22	20	27	1.98
43108998--43109181	51	3.6	50	82	3	217	32	26	17	24	1.97
43108998--43109181	101	1.8	102	86	3	273	32	26	17	24	1.97

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