genome.fa.s8.2.7.7.80.10.50.1000.118.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  118  of  190  ( 22705 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)
35665372--35665413	18	2.5	17	84	7	50	21	0	7	71	1.09
35672417--35672476	25	2.4	25	78	8	70	23	25	21	30	1.99
35674539--35674687	48	3.1	47	81	3	181	27	22	28	21	1.99
35688195--35688912	44	16.3	44	76	7	566	29	24	15	29	1.96
35688211--35688914	131	5.3	133	85	2	850	29	24	15	30	1.96
35688300--35688948	133	4.9	130	78	8	534	28	24	16	30	1.96
35700733--35700779	14	3.4	14	77	11	53	68	0	4	27	1.08
35701132--35701168	2	18.5	2	100	0	74	51	0	0	48	1.00
35703157--35703198	13	3.5	13	81	18	63	50	14	0	35	1.43
35703157--35703200	23	1.9	23	100	0	88	50	13	0	36	1.42
35703158--35703207	23	2.2	23	92	0	82	52	14	0	34	1.42
35704984--35705046	17	3.5	17	71	12	63	49	14	3	33	1.59
35704975--35705049	37	2.0	37	97	0	141	45	16	4	34	1.66
35704975--35705066	37	2.5	37	89	7	125	46	15	4	33	1.65
35705179--35705287	39	2.8	39	90	1	175	17	2	27	52	1.58
35705285--35705317	13	2.6	13	95	4	59	18	0	42	39	1.50
35706745--35706825	38	2.2	37	78	10	85	50	2	2	44	1.28
35706747--35706872	61	2.1	58	91	4	198	50	3	2	43	1.30
35711423--35711461	16	2.4	16	86	0	51	43	5	15	35	1.69
35713542--35713578	19	1.9	19	88	0	56	18	5	5	70	1.27
35715669--35715719	21	2.4	22	80	3	59	31	1	19	47	1.61
35721069--35721096	13	2.2	13	100	0	56	39	35	10	14	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35722559--35722616	22	2.6	22	94	2	98	37	0	3	58	1.15
35722559--35722628	22	3.0	23	87	8	97	38	0	2	58	1.13
35722823--35722863	13	3.2	13	86	3	57	70	0	29	0	0.87
35724170--35724260	39	2.3	39	90	3	139	20	15	20	42	1.88
35724244--35724278	12	2.9	12	91	0	52	17	25	17	40	1.90
35724209--35724317	57	1.9	57	88	0	164	18	21	21	39	1.93
35725145--35725195	17	3.0	17	88	0	75	39	11	11	37	1.79
35726306--35726353	22	2.2	22	88	7	71	37	14	14	33	1.87
35729371--35730167	44	17.8	45	80	4	684	30	19	16	33	1.94
35729419--35730167	134	5.6	134	80	4	636	30	19	16	33	1.94
35729389--35730167	179	4.4	177	79	5	577	30	19	16	33	1.94
35729371--35730154	89	8.8	88	80	5	653	29	20	15	34	1.94
35750094--35750133	20	2.0	21	90	5	64	62	0	0	37	0.95
35757110--35757155	23	2.0	23	100	0	92	17	21	30	30	1.96
35758195--35758383	97	1.9	97	100	0	378	41	17	17	22	1.90
35758476--35758527	17	2.8	18	82	8	52	11	23	44	21	1.84
35758759--35758836	27	3.0	26	80	10	63	28	17	16	37	1.92
35760184--35760220	18	2.1	18	100	0	74	16	37	5	40	1.71
35761456--35761553	37	2.6	38	83	3	117	20	14	34	30	1.92
35763062--35763100	18	2.2	18	90	9	62	48	15	10	25	1.76
35763147--35763207	30	2.0	30	87	6	88	21	44	0	34	1.53
35769794--35769936	76	1.9	77	83	5	191	41	18	4	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35771378--35771447	34	2.1	34	89	5	108	42	17	12	27	1.85
35790945--35791197	27	9.4	27	81	0	265	34	16	22	25	1.95
35791111--35791222	27	4.2	26	79	3	82	31	18	23	26	1.98
35791214--35791276	24	2.6	24	84	0	72	25	7	22	44	1.79
35791446--35791618	32	5.4	32	84	0	213	20	20	20	37	1.94
35797031--35797067	17	2.2	17	95	0	65	43	0	29	27	1.55
35797026--35797122	45	2.2	44	90	7	153	47	3	23	25	1.66
35797730--35797828	46	2.2	46	86	0	144	25	18	24	32	1.97
35797730--35797828	23	4.3	23	84	0	126	25	18	24	32	1.97
35799177--35799254	23	3.4	23	87	1	113	37	19	21	21	1.95
35801689--35801725	18	2.0	19	85	15	51	35	18	0	45	1.50
35805677--35805775	28	3.6	27	80	9	110	30	12	28	29	1.93
35806789--35806863	22	3.3	22	77	17	80	32	10	13	44	1.78
35806790--35806954	47	3.5	46	79	7	172	29	12	16	41	1.85
35806803--35806934	22	5.6	24	70	16	89	26	13	16	43	1.85
35806790--35806954	25	7.1	23	69	17	99	29	12	16	41	1.85
35807841--35808026	93	2.0	93	98	0	363	39	19	9	32	1.83
35817464--35817522	29	2.0	29	100	0	118	55	16	6	20	1.63
35823770--35823858	42	2.1	42	97	0	169	34	6	28	30	1.83
35825856--35825899	22	2.0	22	100	0	88	45	18	4	31	1.69
35826190--35826270	20	4.1	20	82	7	94	55	6	1	37	1.33
35826190--35826269	39	2.1	39	83	4	99	55	6	1	37	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35827683--35827713	16	2.0	15	93	6	53	32	3	0	64	1.09
35827683--35827715	14	2.2	15	89	10	50	33	3	0	63	1.10
35830866--35830894	12	2.3	13	94	5	51	72	0	17	10	1.11
35830980--35831030	25	2.1	25	81	3	59	41	0	1	56	1.10
35834499--35834538	21	1.9	21	90	10	64	22	27	37	12	1.90
35836809--35837028	107	2.1	107	94	0	386	31	19	20	28	1.97
35837443--35837475	2	16.5	2	100	0	66	51	0	0	48	1.00
35839251--35839439	44	4.3	43	67	6	110	26	26	19	26	1.99
35838983--35839475	132	3.7	133	89	2	730	27	24	18	30	1.98
35839465--35839496	7	4.6	7	100	0	64	28	28	0	43	1.55
35839457--35839496	21	1.9	21	84	0	53	27	32	2	37	1.70
35839376--35839585	110	1.9	109	92	0	348	28	27	15	28	1.96
35839251--35839815	242	2.4	227	91	5	873	27	26	18	28	1.98
35839618--35839804	96	2.0	95	91	1	302	28	26	18	27	1.98
35839829--35839943	44	2.6	46	78	12	139	23	23	25	27	2.00
35839967--35840103	43	3.2	43	64	13	118	23	20	25	30	1.98
35839895--35840284	87	4.5	87	92	0	620	23	22	23	29	1.99
35840714--35840909	108	1.8	108	89	2	313	46	11	17	24	1.81
35840883--35840970	45	1.9	47	81	4	108	50	9	14	26	1.73
35841244--35841293	13	3.8	13	77	12	50	0	18	4	78	0.91
35841242--35841305	32	2.1	30	85	5	83	0	18	3	78	0.89
35841244--35841305	6	10.2	6	78	16	58	0	17	3	79	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35841258--35841302	19	2.2	21	84	7	58	0	13	4	82	0.82
35841740--35841815	1	76.0	1	70	0	53	0	1	13	85	0.66
35841747--35841816	6	11.8	6	81	14	83	0	0	15	84	0.63
35841740--35841816	11	6.6	11	78	11	82	0	1	14	84	0.69
35841740--35841815	14	5.7	13	82	10	91	0	1	13	85	0.66
35844657--35844854	107	1.9	107	92	0	333	33	19	18	28	1.95
35847147--35847356	43	4.9	43	84	2	242	29	23	16	30	1.96
35847771--35847812	21	2.0	21	90	0	66	4	47	14	33	1.65
35856694--35856748	25	2.4	22	78	21	67	23	16	45	14	1.84
35856700--35856748	25	2.0	25	92	8	82	24	16	44	14	1.84
35858087--35858147	27	2.3	27	85	5	88	40	18	16	24	1.90
35858633--35858732	28	3.6	28	91	0	155	26	23	23	28	1.99
35861273--35861453	64	2.9	63	86	6	235	40	18	7	33	1.79
35864960--35865192	43	5.4	43	85	5	267	28	16	25	29	1.97
35873542--35873600	20	3.1	19	80	7	57	49	8	5	37	1.55
35875798--35875858	17	3.4	17	68	12	50	50	13	3	32	1.57
35875792--35875863	37	1.9	37	94	0	126	48	15	2	33	1.59
35875791--35875880	37	2.4	37	85	3	110	51	14	2	32	1.55
35875987--35876032	18	2.6	18	85	0	65	30	0	2	67	1.03
35879777--35879801	11	2.3	11	100	0	50	0	8	0	92	0.40
35888338--35888444	42	2.5	43	80	1	126	27	18	22	31	1.97
35888300--35888456	43	3.7	43	73	12	153	26	18	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35890516--35890557	21	2.0	22	90	4	68	30	4	26	38	1.77
35897584--35897628	20	2.3	19	88	7	72	2	17	8	71	1.23
35899755--35899796	6	6.8	6	81	13	50	21	2	0	76	0.90
35902820--35902856	17	2.2	17	90	0	56	0	21	0	78	0.75
35902820--35902857	6	6.5	6	87	6	51	0	21	0	78	0.74
35906218--35906267	19	2.5	20	83	3	66	18	2	18	62	1.43
35907493--35907533	19	2.2	19	100	0	82	41	4	7	46	1.53
35912097--35912232	68	2.0	67	90	4	211	35	22	12	30	1.91
35912258--35912295	17	2.2	17	95	0	67	13	7	0	78	0.94
35913513--35913542	14	2.1	14	93	0	51	50	3	6	40	1.45

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