genome.fa.s9.2.7.7.80.10.50.1000.98.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  98  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)
33655232--33655271	17	2.4	17	87	8	55	22	0	20	57	1.41
33657109--33657162	22	2.5	21	77	11	56	44	1	1	51	1.22
33658628--33658671	22	2.0	22	86	0	61	18	18	11	52	1.74
33659280--33659332	24	2.4	21	84	9	61	56	0	1	41	1.10
33659687--33659717	3	10.7	3	93	6	55	0	35	0	64	0.94
33662339--33662373	13	2.7	13	86	0	52	40	2	0	57	1.14
33664154--33664188	2	17.5	2	100	0	70	51	0	0	48	1.00
33664591--33664678	40	2.2	41	83	4	115	29	2	11	56	1.46
33664662--33664793	34	3.8	34	75	8	113	18	9	11	59	1.58
33664728--33664793	34	1.9	34	93	0	114	18	9	9	63	1.49
33666297--33666573	137	2.0	137	99	0	545	37	15	22	24	1.93
33668438--33668478	20	2.1	20	86	13	59	56	2	9	31	1.45
33670725--33670764	20	2.0	21	90	5	64	37	0	2	60	1.11
33675107--33675162	24	2.3	24	81	0	67	14	19	23	42	1.88
33675686--33675740	28	2.0	28	92	0	92	34	18	27	20	1.95
33681511--33681650	70	2.0	71	93	6	241	38	1	7	52	1.40
33681569--33681912	90	3.9	90	94	1	579	36	1	6	55	1.37
33681569--33681912	178	1.9	177	92	2	573	36	1	6	55	1.37
33683293--33683468	41	4.3	41	83	4	230	32	24	17	25	1.97
33683293--33683467	81	2.1	82	87	3	255	33	24	17	25	1.96
33686726--33686862	41	3.4	41	92	1	222	40	12	22	24	1.89
33691917--33692055	41	3.4	41	88	1	208	39	12	22	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33696615--33696642	2	14.0	2	100	0	56	50	0	0	50	1.00
33703173--33703220	11	4.8	11	75	19	52	70	0	29	0	0.87
33703175--33703235	28	2.1	29	85	8	81	70	4	24	0	1.07
33705435--33706407	44	21.8	44	73	8	540	32	18	21	27	1.97
33705425--33706041	178	3.5	178	84	2	776	32	18	22	26	1.97
33705670--33706087	133	3.1	132	83	3	482	33	18	22	26	1.97
33706581--33706697	51	2.4	47	83	8	121	29	15	28	27	1.96
33706377--33706787	194	2.1	189	84	4	538	28	19	23	27	1.98
33708165--33708220	25	2.2	25	78	6	60	21	5	8	64	1.42
33709608--33709650	18	2.3	18	84	8	50	55	2	4	37	1.33
33710048--33710079	7	4.7	7	96	3	57	40	0	0	59	0.97
33710048--33710090	13	3.3	13	84	12	61	44	0	0	55	0.99
33723656--33724001	126	2.7	126	97	0	638	30	15	21	32	1.94
33727128--33727152	10	2.5	10	100	0	50	48	0	8	44	1.32
33727135--33727279	56	2.6	57	77	12	172	46	7	9	35	1.65
33727276--33727659	29	13.3	29	87	5	555	25	0	25	49	1.51
33727376--33727435	27	2.4	23	73	19	57	26	0	25	48	1.52
33727398--33727641	9	25.6	10	63	27	61	23	0	26	50	1.50
33727276--33727659	57	6.6	57	89	5	603	25	0	25	49	1.51
33727707--33727755	25	1.9	25	87	4	71	38	16	4	40	1.67
33727869--33727921	24	2.2	24	86	0	70	3	24	30	41	1.72
33728863--33728887	7	3.6	7	100	0	50	60	12	0	28	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33729966--33730014	10	4.8	10	77	5	53	67	0	0	32	0.91
33729966--33730030	31	2.1	31	97	0	121	64	0	0	35	0.94
33729972--33730013	21	2.0	21	85	0	57	64	0	0	35	0.94
33730036--33730083	22	2.2	22	96	0	87	41	0	29	29	1.56
33736768--33736900	38	3.5	39	68	15	109	24	18	21	35	1.96
33737424--33737471	24	2.0	23	84	4	60	35	0	12	52	1.40
33738035--33738139	54	1.9	54	86	0	147	24	20	36	19	1.95
33742378--33742532	77	2.0	77	89	0	238	21	13	30	34	1.92
33757712--33757902	68	2.8	68	83	1	240	25	21	16	36	1.94
33762483--33762531	19	2.5	19	86	3	62	38	0	8	53	1.31
33767010--33767045	11	3.4	11	88	7	56	72	0	0	27	0.85
33771951--33772075	50	2.4	52	85	4	164	25	25	12	36	1.92
33783999--33784110	56	2.0	56	100	0	224	28	26	16	28	1.97
33785928--33785979	26	2.0	26	96	0	95	13	23	34	28	1.92
33785850--33786219	103	3.6	103	92	2	591	19	20	29	30	1.97
33792490--33792523	16	2.1	17	88	5	52	41	8	0	50	1.34
33797495--33797548	23	2.2	25	81	15	69	38	24	22	14	1.91
33803611--33803635	13	1.9	13	100	0	50	48	44	8	0	1.32
33808916--33808974	19	3.2	17	79	20	57	66	5	0	28	1.13
33808943--33808985	17	2.4	18	80	3	52	60	0	0	39	0.97
33811811--33811845	6	5.8	6	93	0	52	57	0	25	17	1.40
33819782--33819827	20	2.2	22	77	14	53	23	28	30	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33820990--33821028	3	13.0	3	100	0	78	66	0	33	0	0.92
33829678--33829822	47	3.1	47	68	20	124	45	2	3	48	1.33
33829664--33829899	91	2.6	91	93	0	391	47	2	4	45	1.39
33829694--33829837	47	3.1	47	67	20	131	45	2	3	48	1.34
33830368--33830399	16	2.0	16	93	0	55	25	40	0	34	1.56
33831809--33831883	28	2.7	28	95	0	132	41	16	10	32	1.82
33836567--33836599	5	6.8	5	96	3	59	57	0	0	42	0.98
33837121--33837162	15	2.9	15	79	6	52	26	0	2	71	0.98
33846715--33846766	27	1.9	27	92	0	86	30	25	13	30	1.94
33852415--33852613	98	2.0	98	96	0	362	28	19	22	29	1.98
33864596--33864660	23	2.9	23	84	13	91	6	26	0	67	1.13
33876423--33876758	50	6.7	50	77	8	283	28	20	26	24	1.99
33876526--33876751	98	2.3	98	97	0	425	30	22	24	22	1.99
33876476--33876758	49	5.8	49	74	9	202	28	21	26	22	1.99
33887484--33887527	18	2.4	19	79	20	58	43	0	13	43	1.44
33888805--33888848	21	2.1	21	82	0	52	27	25	31	15	1.96
33891195--33891326	66	2.0	66	90	0	210	21	22	15	40	1.91
33895715--33895753	19	2.1	19	100	0	78	41	5	28	25	1.77
33897141--33897222	20	4.2	19	79	10	85	48	12	8	30	1.70
33899254--33899288	17	2.1	17	94	5	63	45	0	11	42	1.40
33899395--33899458	20	3.0	22	86	6	80	46	9	9	34	1.68
33899481--33899526	20	2.3	20	84	0	56	39	2	10	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33900528--33900582	8	6.4	9	89	8	80	69	0	0	30	0.89
33900535--33900582	17	2.9	17	93	3	80	68	0	0	31	0.90
33903794--33903836	3	14.3	3	100	0	86	0	0	32	67	0.91
33912685--33912726	20	2.1	20	90	0	66	40	9	26	23	1.85
33919623--33919659	18	2.2	18	85	9	51	45	16	2	35	1.61
33926034--33926068	18	2.0	17	88	5	52	34	17	0	48	1.47
33927243--33927267	12	2.1	12	100	0	50	44	0	0	56	0.99
33927245--33927299	22	2.5	21	80	8	65	40	1	1	56	1.21
33927427--33927503	20	3.8	20	76	10	75	61	1	1	36	1.13
33927616--33927663	10	5.0	10	82	10	64	35	2	2	60	1.20
33927617--33927663	19	2.5	19	86	10	69	34	2	2	61	1.20
33928274--33929427	597	1.9	596	90	1	1850	23	15	27	33	1.95
33929642--33929794	53	2.8	55	82	4	213	51	16	7	24	1.69
33937323--33937368	23	2.0	23	100	0	92	21	21	8	47	1.77
33951080--33951109	16	1.9	16	93	6	53	63	0	0	36	0.95
33955598--33955643	20	2.3	19	85	11	56	71	2	6	19	1.18
33956626--33956695	20	3.4	20	75	11	70	10	22	22	44	1.83
33980090--33980164	26	2.9	26	95	0	132	33	25	25	16	1.95
33980320--33980379	27	2.2	27	87	0	84	21	13	25	40	1.89
33980333--33980471	27	5.1	27	87	0	179	20	17	20	41	1.90
33980333--33980471	54	2.6	54	84	0	197	20	17	20	41	1.90
33987880--33988007	26	4.9	26	84	1	123	35	26	21	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33988182--33988323	27	5.3	27	85	6	207	19	16	19	44	1.87
33992302--33992351	20	2.5	20	93	0	82	24	22	2	52	1.58
33997698--33997747	23	2.2	23	88	0	73	18	26	20	36	1.95
33999649--33999765	40	2.9	40	82	5	130	42	9	16	31	1.80
33999648--33999766	20	5.9	20	75	5	98	42	9	16	31	1.80
33999736--33999780	20	2.2	20	88	0	63	37	13	20	28	1.90
34002061--34002126	32	2.0	33	83	13	84	28	7	9	54	1.59
34005284--34005634	172	2.0	177	93	4	613	27	18	11	43	1.84
34006145--34006178	17	2.0	17	100	0	68	29	11	11	47	1.76
34009118--34009151	3	11.3	3	100	0	68	64	0	0	35	0.94

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