genome.fa.s5.2.7.7.80.10.50.1000.102.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  102  of  208  ( 24913 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)
30792043--30792127	18	4.4	18	70	18	64	64	4	23	7	1.38
30792157--30792191	18	1.9	18	88	11	54	57	0	20	22	1.41
30792179--30792217	18	2.3	17	91	8	62	71	0	15	12	1.14
30801069--30801125	15	3.6	17	84	9	61	31	14	5	49	1.65
30803857--30803907	23	2.2	23	85	0	66	29	7	19	43	1.79
30804955--30805182	27	8.5	27	78	13	140	26	18	17	36	1.94
30804998--30805182	27	6.9	27	85	6	209	25	18	17	38	1.92
30804960--30805182	54	4.1	55	78	12	196	26	18	17	37	1.93
30809749--30809787	20	2.0	20	94	0	69	23	10	28	38	1.87
30815752--30815783	15	2.0	17	88	11	50	62	15	0	21	1.32
30819813--30819873	28	2.2	28	78	0	68	29	22	24	22	1.99
30820041--30820092	22	2.4	22	80	0	59	48	19	15	17	1.82
30820104--30820314	32	6.6	32	76	5	176	36	22	20	20	1.96
30820104--30820312	96	2.2	97	79	3	235	36	22	21	20	1.95
30820534--30820581	20	2.4	20	89	0	69	27	31	16	25	1.97
30822115--30822196	24	3.5	23	75	11	76	51	24	3	20	1.64
30822237--30822486	27	9.3	27	87	0	365	25	21	19	33	1.97
30822233--30822593	54	6.9	54	79	7	379	24	22	20	32	1.97
30822445--30822528	42	2.0	42	90	0	132	26	22	27	23	2.00
30822492--30822561	27	2.6	27	79	0	77	22	21	22	32	1.98
30822555--30822640	27	3.3	27	85	12	117	23	18	16	41	1.89
30829376--30829403	3	9.3	3	100	0	56	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30837264--30837330	33	2.0	33	94	0	116	26	26	11	34	1.91
30850208--30850251	23	1.9	22	82	17	54	36	25	0	38	1.56
30850296--30850384	45	2.0	45	88	0	133	33	23	15	26	1.95
30850395--30850581	51	3.7	51	79	3	216	29	27	18	24	1.98
30856982--30857024	20	2.2	20	86	0	59	53	2	30	13	1.53
30859797--30859828	14	2.3	14	100	0	64	12	18	43	25	1.85
30863286--30863316	15	2.1	15	93	0	53	12	6	3	77	1.08
30866801--30866983	101	1.8	102	89	3	289	24	19	27	28	1.98
30866797--30866992	51	3.9	50	77	4	205	24	18	28	28	1.98
30866989--30867083	45	2.1	45	90	0	154	26	18	23	31	1.98
30875199--30875289	23	4.0	23	88	5	139	34	28	18	18	1.95
30880289--30880369	36	2.2	36	97	2	153	44	12	20	22	1.85
30882827--30882871	23	2.0	23	95	0	81	37	28	4	28	1.77
30887885--30887929	23	2.0	23	95	0	81	37	28	4	28	1.77
30906317--30906464	27	5.5	27	76	7	106	37	19	20	22	1.95
30906562--30906620	24	2.5	24	88	0	82	18	11	18	50	1.76
30906784--30906946	32	5.1	32	82	0	184	20	20	20	38	1.93
30906938--30907002	22	3.0	21	79	4	76	16	20	18	44	1.87
30918488--30918552	28	2.3	29	86	5	98	12	18	1	67	1.30
30921078--30921127	10	5.0	10	78	9	57	28	16	30	26	1.96
30921080--30921128	20	2.5	20	90	6	73	26	18	30	24	1.98
30927048--30927120	36	2.0	36	94	0	128	26	9	30	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30928220--30928371	40	3.8	40	86	0	196	23	28	16	32	1.96
30936752--30936790	21	1.9	20	84	5	51	43	20	30	5	1.73
30947900--30947924	13	1.9	13	100	0	50	64	12	8	16	1.49
30948649--30948735	14	6.3	13	69	20	52	11	17	1	70	1.23
30948667--30948707	17	2.3	18	83	8	57	12	17	0	70	1.16
30948741--30948792	17	3.0	17	76	15	61	5	15	5	73	1.22
30948741--30948798	18	3.3	18	75	20	59	5	13	6	74	1.20
30948741--30948802	12	5.3	12	75	12	58	4	14	6	74	1.19
30951887--30951933	23	2.0	23	100	0	94	36	17	25	21	1.94
30958379--30958434	20	2.8	19	89	7	85	23	30	17	28	1.97
30962264--30962296	5	6.6	5	90	10	50	15	3	0	81	0.80
30977107--30977134	14	2.0	14	100	0	56	35	7	21	35	1.81
30982371--30982706	51	6.6	51	78	5	333	29	16	25	29	1.96
30982370--30982706	101	3.3	99	80	6	338	29	16	25	29	1.96
30982371--30982710	152	2.2	152	93	0	581	29	16	25	29	1.96
31001499--31001539	21	2.0	21	90	0	64	34	21	29	14	1.93
31011709--31011757	26	2.0	25	84	8	64	44	0	6	48	1.27
31028453--31028494	16	2.6	16	96	3	75	64	9	9	16	1.49
31029427--31029464	13	2.8	13	82	17	51	73	0	18	7	1.06
31040508--31040604	23	4.2	23	96	2	169	29	9	20	40	1.84
31042072--31042708	50	12.7	50	84	5	734	22	29	21	26	1.99
31042229--31042747	249	2.1	247	82	6	627	23	30	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31045697--31045747	23	2.2	23	92	0	84	27	9	23	39	1.86
31049486--31049528	16	2.7	15	78	7	50	46	4	0	48	1.22
31053059--31053103	22	2.0	22	83	8	56	40	4	0	55	1.20
31055961--31056175	41	5.3	39	75	9	180	25	15	26	32	1.96
31055978--31056198	82	2.7	82	86	2	302	26	15	26	32	1.95
31055986--31056200	41	5.3	41	75	8	170	25	15	26	32	1.96
31064839--31065076	41	5.8	40	76	11	187	23	14	29	32	1.94
31064818--31065077	82	3.2	81	84	3	292	23	14	29	32	1.94
31072239--31072409	51	3.4	51	79	3	184	31	12	25	30	1.93
31074552--31074594	17	2.4	18	84	3	52	11	16	2	69	1.28
31074609--31074672	27	2.3	27	81	7	76	14	15	0	70	1.17
31077089--31077204	31	3.7	31	79	8	117	46	15	11	26	1.79
31082873--31082934	32	1.9	33	93	3	108	51	8	12	27	1.68
31095540--31095608	33	2.1	34	86	2	95	27	26	24	21	1.99
31095573--31095633	28	2.2	28	91	2	97	31	26	21	21	1.98
31095671--31095723	21	2.5	21	100	0	106	35	52	3	7	1.48
31095977--31096172	27	7.3	27	83	3	252	19	18	24	37	1.94
31098855--31099134	41	6.8	41	79	4	231	18	27	15	37	1.91
31098880--31098945	20	3.3	19	67	21	53	16	30	15	37	1.90
31098885--31099130	124	2.0	124	81	4	291	19	28	15	37	1.92
31099020--31099080	19	3.0	20	75	18	54	21	32	14	31	1.93
31101903--31101990	40	2.3	39	86	7	117	37	3	7	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31101999--31102034	17	2.1	18	94	5	65	27	0	13	58	1.36
31105456--31105490	11	3.1	11	91	4	52	37	0	60	2	1.12
31105455--31105490	17	2.1	18	89	5	56	36	0	61	2	1.11
31105712--31105766	28	2.0	28	100	0	110	34	14	7	43	1.73
31110125--31110200	38	2.0	39	92	2	127	25	7	22	44	1.79
31115375--31115420	24	1.9	24	95	0	83	36	19	13	30	1.90
31116031--31116056	7	3.7	7	100	0	52	23	15	0	61	1.33
31117363--31117440	39	2.0	39	92	0	129	32	28	12	26	1.93
31117892--31117934	19	2.2	20	95	4	79	27	30	18	23	1.98
31126274--31126333	25	2.4	25	85	0	75	35	11	23	30	1.90
31130505--31130534	15	2.0	15	93	0	51	13	6	36	43	1.70
31133331--31133363	16	2.2	15	89	10	50	81	6	3	9	0.95
31133305--31133362	25	2.3	26	84	3	73	72	6	5	15	1.24
31133305--31133374	25	2.7	25	80	6	68	71	7	7	14	1.29
31136200--31136256	10	5.9	9	74	13	51	24	28	17	29	1.97
31136198--31136254	20	2.9	19	89	7	87	24	29	17	28	1.97
31136197--31136275	20	4.0	21	84	11	80	22	26	15	35	1.94
31142991--31143031	20	2.0	20	90	0	64	34	34	17	14	1.90
31144712--31144740	15	1.9	15	100	0	58	44	20	13	20	1.85
31154042--31154080	15	2.4	16	83	12	53	28	7	2	61	1.37
31166381--31166738	44	7.7	44	68	17	195	32	17	21	28	1.96
31166377--31166796	142	3.0	142	94	0	714	33	17	21	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31166660--31166781	44	2.8	44	78	5	122	31	19	21	27	1.97
31170395--31170451	28	2.0	28	100	0	114	36	10	17	35	1.84
31171598--31171626	13	2.1	14	93	6	51	20	6	20	51	1.70
31178765--31179001	27	8.8	27	80	6	223	27	13	17	41	1.87
31178779--31179001	81	2.8	81	89	6	312	27	13	17	41	1.86
31178779--31179041	81	3.2	80	85	7	266	27	12	17	41	1.86
31179374--31179423	21	2.3	21	83	10	57	58	10	12	20	1.62
31180399--31180439	20	2.0	21	86	13	59	34	7	0	58	1.26
31180433--31180508	12	6.2	12	75	11	57	42	5	1	51	1.33
31187284--31187341	22	2.7	21	76	10	53	43	18	3	34	1.68

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