genome.fa.s5.2.7.7.80.10.50.1000.117.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  117  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)
35545901--35545976	27	2.8	27	83	0	98	15	28	27	27	1.96
35546040--35546085	24	1.9	24	100	0	92	52	0	8	39	1.33
35546040--35546107	24	2.7	24	88	9	91	50	0	10	39	1.37
35546513--35546537	5	5.0	5	100	0	50	80	0	20	0	0.72
35567549--35567582	11	3.1	11	87	12	52	52	0	0	47	1.00
35579039--35579138	49	2.0	49	100	0	200	44	18	13	25	1.85
35579743--35579784	4	10.0	4	80	19	50	71	0	4	23	1.05
35579743--35579784	17	2.5	16	82	17	50	71	0	4	23	1.05
35584771--35584928	31	5.1	31	75	1	129	31	8	15	43	1.78
35588628--35588683	3	18.7	3	85	14	80	37	0	0	62	0.95
35588622--35588684	21	3.3	18	81	14	81	41	0	0	58	0.98
35588628--35588683	21	2.6	21	97	2	103	37	0	0	62	0.95
35589743--35589846	44	2.4	42	84	7	120	19	21	24	35	1.96
35589743--35589851	23	5.0	22	81	8	116	19	20	23	36	1.95
35590012--35590055	13	3.5	13	93	3	72	36	0	27	36	1.57
35593201--35593359	61	2.6	61	82	3	158	29	8	16	45	1.76
35593231--35593359	31	4.2	31	85	2	179	29	8	18	43	1.80
35595295--35595349	17	3.2	17	73	14	58	21	7	14	56	1.63
35596253--35596328	32	2.4	32	79	16	86	40	11	13	34	1.81
35596417--35596497	41	2.0	42	85	2	110	29	19	24	25	1.99
35598829--35598866	2	19.0	2	94	0	67	50	0	2	47	1.15
35604088--35604132	18	2.5	18	81	0	54	46	11	31	11	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35604347--35604514	74	2.3	74	86	3	221	38	12	10	38	1.78
35604416--35604735	161	2.0	162	93	1	554	39	11	15	33	1.83
35606576--35606636	30	2.1	29	81	3	68	45	8	13	32	1.72
35607763--35607788	13	2.0	13	100	0	52	30	7	15	46	1.74
35609886--35609915	7	4.1	7	91	8	51	56	0	0	43	0.99
35620822--35620915	45	2.1	45	91	0	152	31	24	18	25	1.97
35620912--35621107	51	3.9	50	79	4	223	30	29	17	22	1.97
35620919--35621103	101	1.8	101	89	3	291	31	28	17	22	1.96
35624371--35624517	56	2.6	56	81	9	163	31	3	6	57	1.41
35624660--35624825	72	2.3	72	82	7	203	36	9	6	47	1.61
35625020--35625055	17	2.1	18	89	5	56	44	0	0	55	0.99
35644907--35644941	18	1.9	18	88	0	52	71	22	2	2	1.13
35654379--35654404	7	3.7	7	100	0	52	30	38	0	30	1.58
35660891--35661065	78	2.3	76	79	6	183	40	11	22	25	1.87
35661247--35661322	19	4.1	19	82	1	100	14	5	23	56	1.58
35662504--35662564	9	6.6	9	81	7	77	37	27	9	24	1.87
35662571--35662705	17	7.4	17	64	14	63	50	12	2	34	1.55
35662565--35662730	37	4.5	37	93	2	264	50	13	3	33	1.59
35662588--35662688	20	5.3	20	64	13	70	47	13	3	34	1.62
35668433--35668466	14	2.5	14	90	4	52	29	0	23	47	1.52
35668791--35668985	27	7.2	27	79	6	189	38	11	19	30	1.88
35668791--35668982	81	2.4	81	88	0	267	38	11	19	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35672019--35672223	86	2.4	85	82	10	262	40	20	7	32	1.80
35673596--35673733	44	3.2	41	75	15	120	55	0	2	41	1.20
35673965--35674058	10	9.5	10	68	9	50	27	5	2	64	1.26
35673939--35674010	27	2.6	28	77	2	74	33	4	1	61	1.24
35674133--35674331	89	2.2	91	86	4	296	33	9	22	34	1.86
35674666--35674706	22	1.9	22	85	5	57	53	0	2	43	1.13
35686386--35686456	27	2.6	27	84	0	79	15	32	21	30	1.94
35688420--35688459	18	2.2	18	86	0	53	72	0	25	2	0.97
35693539--35693575	13	2.7	14	91	8	67	29	0	0	70	0.88
35693531--35693565	18	1.9	18	88	11	54	28	0	0	71	0.86
35695715--35695892	25	7.2	25	75	13	107	33	21	27	17	1.96
35695751--35695892	49	2.9	48	81	5	167	33	21	28	17	1.96
35697146--35697272	32	4.0	32	84	0	164	35	20	22	22	1.96
35697273--35697326	26	2.1	26	85	0	72	37	20	20	22	1.95
35699017--35699243	27	8.4	27	87	0	258	24	21	19	34	1.96
35710272--35710343	36	1.9	38	83	13	96	61	0	2	36	1.11
35710290--35710343	17	3.1	17	80	15	65	62	0	1	35	1.06
35710636--35710682	24	1.9	25	83	12	62	38	10	2	48	1.50
35710835--35710878	7	6.3	7	86	0	52	20	4	0	75	0.98
35715335--35715377	22	2.0	22	90	0	68	9	18	27	44	1.80
35715469--35715677	42	4.9	42	91	4	314	31	20	22	25	1.98
35715471--35715677	85	2.4	84	91	3	326	30	20	22	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35715471--35715719	85	2.9	85	87	4	299	30	20	22	26	1.98
35716158--35716206	21	2.3	21	85	0	62	4	36	20	38	1.72
35718810--35719083	147	1.9	147	82	4	347	36	22	14	27	1.93
35718809--35719134	147	2.2	147	78	5	338	37	21	14	26	1.92
35718975--35719440	218	2.1	218	95	1	833	37	21	14	26	1.92
35719994--35720045	27	2.0	26	85	11	70	46	26	0	26	1.53
35720318--35720355	17	2.4	16	86	8	51	39	31	2	26	1.70
35723049--35724446	707	2.0	707	98	0	2717	34	18	15	31	1.92
35725264--35725971	353	2.0	354	93	0	1220	30	23	12	33	1.92
35729256--35729380	45	2.8	45	87	2	189	42	10	20	26	1.84
35733978--35734028	16	3.2	16	88	5	68	39	3	27	29	1.74
35742385--35742417	16	2.1	16	100	0	66	42	6	33	18	1.75
35745311--35745395	35	2.4	35	80	3	91	42	17	24	15	1.88
35747378--35747510	25	5.3	25	74	8	101	27	17	26	29	1.97
35754768--35754818	22	2.3	24	75	21	58	25	1	25	47	1.63
35756035--35756106	29	2.4	29	81	6	81	37	19	11	31	1.87
35756106--35756149	19	2.3	19	96	0	79	29	9	15	45	1.77
35756236--35756315	29	2.7	29	80	7	90	22	16	17	43	1.87
35757792--35757843	16	3.2	16	97	0	95	26	0	34	38	1.57
35765722--35765786	27	2.4	28	94	2	114	38	10	1	49	1.47
35765789--35765824	17	2.0	18	89	10	56	66	22	5	5	1.34
35766088--35766140	18	3.1	18	81	10	67	41	13	0	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35766094--35766143	15	3.1	15	85	8	64	44	14	0	42	1.44
35766151--35766222	23	3.2	23	65	31	64	43	0	15	41	1.46
35766149--35766237	45	2.0	45	100	0	178	43	0	15	40	1.47
35775194--35775229	3	12.0	3	100	0	72	66	0	33	0	0.92
35776221--35776306	42	2.0	43	82	6	104	43	8	15	33	1.76
35779197--35779321	63	2.0	64	87	4	182	27	19	4	48	1.68
35785138--35785253	58	2.0	57	89	1	178	43	12	16	28	1.83
35787239--35787311	3	23.7	3	71	15	51	65	5	2	26	1.27
35788146--35788217	30	2.4	30	90	0	108	18	20	27	33	1.96
35790581--35790792	48	4.4	48	80	3	201	24	27	20	27	1.99
35790598--35790782	96	1.9	96	83	0	235	22	29	21	26	1.99
35794637--35794685	14	3.4	14	88	5	71	73	0	2	24	0.94
35796841--35796883	21	2.0	21	91	8	70	65	4	18	11	1.42
35799477--35799520	10	4.8	9	81	13	54	65	2	0	31	1.05
35806087--35806112	9	2.9	9	100	0	52	34	0	23	42	1.54
35808218--35808469	29	8.7	28	74	13	165	27	17	21	33	1.96
35808363--35808488	58	2.2	58	82	5	148	26	19	20	33	1.97
35808909--35808997	41	2.2	41	97	2	171	53	12	19	14	1.71
35812907--35812942	17	2.0	17	89	10	54	19	2	11	66	1.35
35815935--35816046	50	2.2	51	84	7	149	29	17	23	29	1.97
35815935--35816041	25	4.2	25	85	3	126	30	17	21	29	1.96
35824782--35824827	10	4.5	10	83	2	56	26	2	23	47	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35832412--35832457	10	4.5	10	83	2	56	26	2	23	47	1.63
35839024--35839061	20	1.9	20	94	0	67	31	34	0	34	1.58
35839075--35839133	28	2.1	28	83	0	73	15	30	1	52	1.52
35839657--35839689	10	3.3	10	91	0	57	33	18	6	42	1.75
35842141--35842244	55	1.9	55	81	0	127	27	30	21	20	1.98
35854355--35854587	39	6.1	39	73	8	156	35	37	18	8	1.81
35854405--35854502	15	6.3	15	71	11	63	35	37	21	5	1.76
35854406--35854487	36	2.2	37	89	6	121	35	37	20	6	1.78
35854355--35854591	114	2.1	112	82	6	280	35	37	19	8	1.81
35854460--35854505	15	3.1	15	90	0	65	34	39	23	2	1.67

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