genome.fa.s5.2.7.7.80.10.50.1000.113.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  113  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)
34171622--34171677	26	2.2	26	84	12	71	44	1	1	51	1.22
34172395--34172438	15	2.8	16	77	16	56	50	2	0	47	1.13
34172395--34172455	31	2.0	31	90	0	95	45	4	0	49	1.23
34172511--34172548	17	2.2	18	85	4	51	47	0	0	52	1.00
34178964--34179086	40	3.1	38	73	9	113	39	22	17	19	1.92
34179134--34179317	41	4.5	41	88	0	269	19	21	29	29	1.97
34179290--34179344	27	2.0	27	85	0	74	14	16	27	41	1.87
34180420--34180667	137	1.9	130	90	9	403	50	8	6	35	1.58
34181077--34181117	20	2.1	19	86	4	55	46	4	0	48	1.23
34186447--34186480	17	1.9	18	94	5	61	32	38	29	0	1.58
34186693--34186749	27	2.2	26	81	9	62	26	8	1	63	1.34
34186962--34187205	43	5.7	43	86	2	305	23	17	30	28	1.97
34189622--34189662	20	2.0	20	85	9	55	36	0	2	60	1.10
34189625--34189664	17	2.3	18	87	12	57	35	0	2	62	1.09
34189641--34190124	241	2.0	231	81	8	566	37	11	8	42	1.71
34190144--34190216	26	2.8	27	80	14	73	38	0	9	52	1.34
34192745--34192780	18	2.1	18	89	5	56	55	0	0	44	0.99
34196035--34196128	19	4.8	19	90	5	152	37	10	15	36	1.83
34196035--34196135	40	2.7	38	88	8	152	37	9	16	35	1.82
34196067--34196151	21	4.0	22	79	14	81	37	7	16	38	1.76
34196117--34196161	23	2.0	23	86	4	65	33	4	15	46	1.66
34196850--34196895	24	2.0	24	86	4	67	21	4	0	73	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34197478--34197659	98	1.9	98	95	0	328	26	9	25	37	1.87
34202553--34203465	132	6.9	132	90	1	1219	28	18	23	29	1.98
34202902--34203360	44	10.4	44	66	13	183	29	17	23	29	1.97
34203694--34203787	19	4.8	19	90	5	152	37	10	15	36	1.83
34203694--34203794	40	2.7	38	88	8	152	37	9	16	35	1.82
34203726--34203810	21	4.0	22	79	14	81	37	7	16	38	1.76
34203776--34203820	23	2.0	23	86	4	65	33	4	15	46	1.66
34205139--34205335	98	2.0	98	95	0	358	28	10	24	37	1.88
34206944--34207172	27	8.5	27	84	1	253	24	20	12	42	1.86
34212349--34212497	41	3.6	41	83	1	183	32	17	30	20	1.95
34212373--34212443	20	3.5	19	70	19	63	36	16	30	15	1.90
34212617--34212807	95	2.0	95	93	2	330	32	16	9	40	1.82
34216854--34217060	31	6.7	31	84	1	265	31	10	15	42	1.81
34216854--34217060	92	2.2	93	87	1	256	31	10	15	42	1.81
34217175--34217282	43	2.5	43	86	1	153	26	15	25	31	1.96
34219127--34219182	12	4.8	12	77	4	51	21	3	5	69	1.24
34219113--34219152	21	1.9	21	85	10	55	22	7	0	70	1.12
34219113--34219195	29	2.9	29	82	3	80	21	8	4	65	1.39
34227865--34227962	42	2.3	42	94	0	169	21	24	35	18	1.95
34231299--34231462	43	3.8	43	75	11	147	25	17	25	31	1.97
34231304--34231453	42	3.5	43	78	6	144	26	18	26	29	1.98
34234905--34234935	16	1.9	16	93	0	53	38	22	16	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34237047--34237150	50	2.1	50	90	0	163	13	25	29	30	1.94
34242284--34242346	30	2.1	30	94	5	110	19	25	30	25	1.98
34245330--34245374	10	4.5	10	86	10	65	51	2	17	28	1.58
34245319--34245397	19	4.0	20	70	18	74	50	2	17	29	1.59
34245329--34245358	9	3.2	9	90	9	51	50	0	23	26	1.50
34250538--34250986	133	3.4	130	78	4	402	34	21	12	31	1.91
34250536--34251082	133	4.2	131	75	7	362	35	20	13	30	1.91
34254849--34254922	23	3.2	23	77	7	71	31	21	24	22	1.99
34259608--34259739	69	1.9	67	84	3	174	43	10	12	33	1.76
34266911--34267398	242	2.0	242	95	1	872	38	19	11	31	1.87
34274962--34274999	4	9.5	4	100	0	76	26	50	0	23	1.50
34276558--34276897	171	2.0	168	93	1	581	45	16	11	27	1.81
34282114--34282352	87	2.7	87	89	2	356	28	16	19	36	1.93
34296715--34296940	33	6.8	33	70	9	118	31	12	24	30	1.93
34296715--34296943	100	2.3	101	89	1	343	31	13	24	31	1.93
34298950--34299015	31	2.1	31	91	0	105	31	24	10	33	1.89
34309897--34309948	20	2.6	20	100	0	104	42	11	15	30	1.82
34314401--34314480	41	2.0	41	94	0	142	51	13	5	30	1.63
34314518--34314556	19	2.1	19	100	0	78	41	15	5	38	1.69
34318254--34318335	41	2.0	41	90	4	130	48	9	8	32	1.66
34318373--34318413	19	2.2	19	100	0	82	43	14	4	36	1.67
34319576--34319614	12	3.2	12	77	0	51	71	2	15	10	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34319625--34319695	33	2.2	31	83	14	83	66	1	22	9	1.29
34319635--34319695	33	1.9	32	87	12	90	65	1	21	11	1.33
34321562--34321606	20	2.2	20	85	14	58	28	4	13	53	1.59
34323808--34323880	12	6.1	12	70	17	53	61	1	23	13	1.40
34323823--34323856	15	2.3	15	89	0	50	67	0	29	2	1.05
34325957--34326014	25	2.4	24	80	8	64	32	12	10	44	1.75
34331246--34331296	22	2.4	21	76	20	52	9	11	1	76	1.10
34338148--34338193	19	2.4	19	81	0	56	26	8	4	60	1.44
34339457--34339501	21	2.1	21	84	8	56	51	11	4	33	1.58
34343186--34343256	36	2.0	36	91	0	115	12	14	22	50	1.76
34345800--34345836	6	6.2	6	100	0	74	32	32	0	35	1.58
34353900--34353932	17	1.9	17	100	0	66	42	9	0	48	1.35
34355991--34356030	14	2.5	17	84	15	59	57	5	2	35	1.34
34358049--34358313	110	2.4	108	83	5	291	29	15	26	28	1.96
34358128--34358367	110	2.2	110	81	5	272	29	17	25	27	1.97
34363779--34364018	29	8.2	29	81	3	257	37	14	27	20	1.91
34363779--34364018	117	2.1	117	88	1	356	37	14	27	20	1.91
34363774--34364007	88	2.7	88	79	4	283	38	13	28	19	1.90
34371613--34371650	14	2.7	15	84	12	53	68	0	31	0	0.90
34381179--34381314	42	3.2	43	84	7	118	25	24	21	29	1.99
34381172--34381526	43	8.3	43	82	5	256	27	25	18	28	1.98
34381219--34381526	43	7.2	43	83	4	315	26	26	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34381172--34381509	86	4.0	85	81	5	351	26	25	19	28	1.99
34384120--34384531	9	48.4	9	72	19	309	31	0	20	47	1.57
34384113--34384422	25	12.3	24	81	11	240	30	0	19	48	1.56
34384084--34384539	34	13.2	34	74	18	329	31	1	19	47	1.57
34384138--34384558	50	8.6	50	75	17	368	32	0	19	47	1.57
34384218--34384509	25	11.9	24	80	8	148	32	0	20	46	1.56
34384467--34384531	32	2.0	32	90	0	103	32	1	23	43	1.63
34384513--34384551	20	2.0	19	90	5	60	33	0	12	53	1.39
34384577--34384617	16	2.5	16	84	4	55	34	0	9	56	1.32
34384554--34384622	12	5.4	12	72	16	50	37	0	10	52	1.36
34384668--34384705	17	2.2	18	90	4	60	60	0	2	36	1.11
34384680--34384722	15	2.9	15	89	0	59	60	0	2	37	1.10
34385214--34385298	31	2.7	31	87	5	118	49	18	12	18	1.79
34385741--34385803	33	2.0	31	81	9	74	52	22	3	22	1.61
34387237--34387328	47	2.0	47	82	4	114	32	9	13	44	1.76
34387768--34387858	39	2.3	39	84	0	128	47	23	3	26	1.67
34387835--34387894	28	2.1	28	81	6	68	48	26	1	23	1.60
34387981--34388718	114	6.5	113	72	9	471	28	21	18	32	1.97
34396395--34396425	16	1.9	16	93	0	53	6	9	9	74	1.23
34397149--34397196	18	2.7	17	81	15	53	22	31	0	45	1.53
34407023--34407139	62	1.9	60	82	5	146	50	3	5	41	1.41
34407118--34407160	20	2.3	19	80	11	54	53	4	2	39	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34416794--34416907	51	2.2	50	83	9	133	26	20	8	44	1.80
34416845--34416960	57	2.0	57	85	6	155	28	18	6	46	1.74
34428971--34428995	4	6.2	4	100	0	50	76	0	0	24	0.80
34430819--34430866	3	16.3	3	86	4	71	29	2	2	66	1.14
34431030--34431084	28	1.9	28	85	10	76	34	3	1	60	1.25
34431726--34431866	73	1.9	73	88	2	212	31	18	17	32	1.94
34432009--34432211	105	1.9	106	91	3	338	28	16	20	34	1.94
34449289--34449576	117	2.4	121	92	2	485	43	1	4	51	1.27
34449451--34449502	22	2.4	21	79	17	54	38	0	5	55	1.24
34449289--34449632	117	2.9	117	86	7	328	43	1	4	50	1.29

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