genome.fa.s7.2.7.7.80.10.50.1000.192.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  192  of  204  ( 24458 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)
56654330--56654369	14	2.8	13	85	14	53	17	37	2	42	1.63
56654337--56654362	7	3.7	7	100	0	52	15	42	0	42	1.47
56654285--56654408	66	1.9	66	96	0	230	25	25	12	36	1.92
56656150--56656208	29	2.0	29	83	3	73	33	8	8	49	1.64
56659980--56660049	16	4.4	16	96	0	113	30	0	35	34	1.58
56660028--56660137	45	2.6	43	80	9	129	33	5	29	31	1.80
56660283--56660317	18	2.0	17	88	5	52	54	0	0	45	0.99
56660170--56660486	157	2.0	157	98	0	616	44	3	4	47	1.39
56660440--56660474	18	2.0	17	88	5	52	54	0	0	45	0.99
56660244--56660552	157	2.0	153	82	7	361	46	4	3	45	1.39
56667081--56667131	24	2.1	23	82	13	59	35	0	5	58	1.22
56667124--56667177	27	2.0	28	85	3	74	50	7	1	40	1.41
56669147--56669295	73	2.0	73	97	0	280	34	6	12	46	1.67
56669166--56669278	36	3.1	36	62	12	86	34	7	11	46	1.69
56670232--56670262	16	2.0	16	93	6	55	64	0	32	3	1.09
56674073--56674521	224	2.0	225	98	0	873	38	22	12	26	1.89
56675465--56675526	29	2.2	28	85	2	79	20	17	8	53	1.69
56680253--56680283	10	3.0	10	95	4	53	58	3	9	29	1.46
56681812--56681855	6	7.3	6	94	0	79	18	0	34	47	1.49
56684111--56684215	18	5.8	18	77	0	93	33	33	12	20	1.90
56684112--56684212	36	2.8	36	76	0	112	33	31	12	21	1.91
56687459--56687842	114	3.4	112	83	5	486	25	27	28	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56689874--56689927	15	3.7	15	77	5	56	53	0	16	29	1.43
56690193--56690388	41	4.8	40	88	3	275	17	16	26	39	1.91
56690193--56690453	123	2.1	123	79	6	280	18	18	24	38	1.93
56690823--56690892	16	4.4	16	67	16	56	27	1	21	50	1.57
56690825--56690905	23	3.5	23	72	22	80	23	1	24	50	1.56
56690916--56690956	22	1.9	21	85	14	57	19	0	24	56	1.42
56694222--56694352	66	2.0	66	92	0	217	41	19	24	14	1.88
56694700--56694799	43	2.3	44	93	5	177	22	16	30	32	1.95
56695462--56695511	24	2.0	25	84	11	66	62	2	8	28	1.35
56695688--56695723	6	6.2	6	93	3	56	50	0	13	36	1.43
56698366--56698434	3	23.0	3	94	5	122	33	0	0	66	0.92
56700612--56700648	18	2.1	18	89	0	56	35	8	0	56	1.29
56701212--56701238	12	2.2	12	100	0	54	44	14	0	40	1.46
56705778--56705814	19	1.9	19	88	0	56	51	5	13	29	1.63
56709770--56709831	33	1.9	33	83	9	83	59	4	0	35	1.19
56709889--56709923	17	1.9	19	88	11	56	65	11	2	20	1.37
56720041--56720074	15	2.3	15	90	5	52	38	2	2	55	1.30
56720780--56720884	33	3.2	33	78	10	115	37	18	13	31	1.89
56724324--56724390	17	4.1	16	75	9	55	35	2	2	58	1.29
56724707--56724762	2	29.0	2	85	7	80	51	1	0	46	1.11
56724954--56724985	15	2.1	15	94	0	55	50	25	0	25	1.50
56726644--56726707	13	4.9	13	81	11	60	43	14	7	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56731143--56731212	35	2.0	35	100	0	140	40	20	8	31	1.82
56737638--56737662	7	3.6	7	100	0	50	12	0	0	88	0.53
56749084--56749135	26	2.0	26	81	7	61	44	0	1	53	1.11
56751280--56751336	29	2.0	29	86	3	80	35	15	10	38	1.82
56773095--56773308	105	2.0	105	100	0	428	29	23	14	31	1.95
56786141--56786207	32	2.1	33	86	8	93	53	1	1	43	1.19
56786197--56786247	21	2.4	21	83	6	59	54	7	0	37	1.29
56790597--56790621	10	2.5	10	100	0	50	40	0	60	0	0.97
56790867--56791202	185	1.8	186	96	1	622	41	15	7	34	1.76
56793251--56793294	24	1.9	24	86	9	65	40	0	0	59	0.98
56793361--56793530	59	2.9	59	97	0	313	44	10	5	40	1.60
56793541--56793582	16	2.6	16	92	0	66	42	7	2	47	1.43
56793556--56793617	23	2.7	23	82	2	72	48	1	1	48	1.21
56804866--56804905	5	8.0	5	83	10	55	40	0	20	40	1.52
56809516--56809566	20	2.5	20	84	15	70	54	0	7	37	1.29
56809582--56809635	26	2.1	26	82	0	63	44	9	14	31	1.77
56810927--56810953	8	3.4	8	100	0	54	55	0	0	44	0.99
56814824--56814879	28	2.0	28	83	13	71	33	1	1	62	1.16
56824061--56824118	28	2.0	29	93	3	100	48	10	5	36	1.60
56825307--56825354	19	2.6	18	76	3	51	43	0	2	54	1.12
56829252--56829316	31	2.1	31	94	0	112	30	21	16	30	1.96
56831221--56831285	31	2.1	31	86	8	89	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56831221--56831271	14	3.2	17	73	18	56	47	0	0	52	1.00
56831220--56831290	30	2.2	31	80	16	83	45	0	0	54	0.99
56831535--56831587	22	2.4	22	87	0	70	50	3	1	43	1.30
56831561--56831599	16	2.4	16	86	0	51	46	5	7	41	1.55
56831572--56831602	16	1.9	16	93	0	53	41	0	9	48	1.36
56831675--56831702	9	3.1	9	100	0	56	32	0	10	57	1.33
56831591--56831800	68	3.1	68	95	1	379	40	4	9	46	1.57
56831743--56831770	9	3.1	9	100	0	56	32	0	10	57	1.33
56831868--56831911	24	1.9	24	90	9	74	61	2	0	36	1.09
56832195--56832229	17	2.0	17	88	5	52	48	0	0	51	1.00
56832991--56833077	36	2.4	36	81	5	88	18	4	14	62	1.49
56841827--56841908	41	2.0	41	97	0	155	47	4	6	41	1.50
56844371--56844404	2	17.0	2	100	0	68	50	0	50	0	1.00
56852591--56852650	29	2.1	29	84	3	77	25	8	5	61	1.44
56852719--56852784	31	2.2	30	81	13	73	37	12	6	43	1.67
56852845--56852889	22	2.0	22	82	4	54	68	6	2	22	1.24
56854010--56854047	14	2.7	14	88	8	51	10	7	5	76	1.15
56854781--56854806	11	2.4	11	100	0	52	61	0	0	38	0.96
56854753--56854831	37	2.0	41	88	9	121	63	0	1	35	1.03
56860514--56861003	163	3.0	161	83	4	547	33	21	19	25	1.97
56862670--56862708	20	1.9	21	89	5	62	38	5	2	53	1.37
56871624--56871654	3	10.3	3	100	0	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56873664--56873700	2	18.5	2	100	0	74	48	0	0	51	1.00
56873698--56873722	3	8.3	3	100	0	50	32	0	0	68	0.90
56876067--56876105	15	2.5	16	91	4	62	56	30	0	12	1.37
56882667--56882772	52	2.0	53	82	8	128	34	9	19	35	1.84
56884443--56884500	29	2.0	29	86	0	80	53	5	10	31	1.57
56892626--56892669	20	2.3	18	88	7	61	34	2	0	63	1.07
56892626--56892685	20	3.1	20	81	13	56	33	1	3	61	1.22
56895178--56895288	49	2.4	47	77	6	118	28	17	6	47	1.71
56900975--56901009	2	17.5	2	100	0	70	51	0	0	48	1.00
56904450--56904480	14	2.1	15	94	5	55	25	25	0	48	1.52
56908363--56908406	20	2.3	18	88	7	61	34	2	0	63	1.07
56908363--56908422	20	3.1	20	81	13	56	33	1	3	61	1.22
56909247--56909302	3	18.7	3	92	7	96	35	0	0	64	0.94
56909727--56909751	13	1.9	13	100	0	50	84	8	8	0	0.79
56910140--56910183	23	1.9	24	90	9	74	54	2	20	22	1.56
56910508--56910599	37	2.5	36	76	15	98	45	1	21	31	1.59
56912881--56912943	32	2.2	26	69	27	63	31	15	12	39	1.85
56920282--56920308	9	3.0	9	100	0	54	55	11	22	11	1.66
56921045--56921101	29	2.0	29	92	0	96	21	29	12	36	1.90
56921199--56921249	26	2.0	26	88	0	75	17	23	21	37	1.94
56924262--56924290	2	14.5	2	100	0	58	51	0	0	48	1.00
56927923--56927953	14	2.1	15	94	5	55	25	25	0	48	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56933024--56933066	21	2.0	21	100	0	86	27	9	18	44	1.80
56940591--56940615	13	1.9	13	100	0	50	16	0	0	84	0.63
56952787--56952819	16	2.1	16	88	11	50	75	6	0	18	1.00
56952794--56952867	29	2.5	30	78	12	91	70	4	2	22	1.17
56952905--56952944	17	2.3	18	86	4	55	62	0	2	35	1.09
56962254--56962424	87	2.0	87	88	0	252	28	21	17	32	1.96
56962494--56962795	153	2.0	153	86	2	428	37	17	21	22	1.94
56963875--56963915	20	2.0	21	90	4	66	21	29	2	46	1.64
56964497--56964527	14	2.1	15	94	5	55	25	25	0	48	1.52
56967401--56967433	16	2.1	16	94	0	57	33	3	3	60	1.27

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