genome.fa.s5.2.7.7.80.10.50.1000.134.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  134  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)
41064483--41064699	44	4.8	45	78	8	215	29	20	23	26	1.99
41064488--41064699	93	2.3	95	82	5	249	28	20	24	26	1.99
41064483--41064734	137	1.9	137	83	9	338	29	21	22	26	1.99
41066457--41066502	9	5.4	9	80	19	55	23	0	2	73	0.94
41066464--41066493	16	1.9	15	93	6	51	23	0	3	73	0.98
41070190--41070224	12	3.0	11	91	8	52	77	0	22	0	0.78
41071384--41071527	23	6.3	23	75	19	122	20	15	20	43	1.88
41071391--41071553	43	3.6	43	72	17	123	20	16	20	41	1.90
41071399--41071578	92	2.0	92	87	0	261	22	16	19	41	1.90
41076616--41076643	4	7.0	4	100	0	56	75	0	0	25	0.81
41079724--41079772	2	24.5	2	100	0	98	51	0	0	48	1.00
41080881--41081029	43	3.5	42	77	9	117	28	24	18	28	1.98
41080885--41081029	44	3.4	43	72	13	120	28	24	18	28	1.98
41085142--41085265	58	2.1	58	86	2	169	46	0	3	49	1.23
41085450--41085520	16	4.4	16	78	3	72	30	22	5	40	1.77
41089359--41089397	19	2.1	19	90	4	62	35	0	15	48	1.45
41089623--41089698	23	3.3	23	83	7	109	25	19	23	31	1.98
41092930--41092981	20	2.5	21	81	6	61	30	19	5	44	1.74
41098943--41099086	75	1.9	75	89	0	225	26	25	25	22	2.00
41098943--41099115	75	2.3	75	85	2	222	23	23	27	24	2.00
41103614--41103682	21	3.3	21	64	9	52	46	17	20	15	1.84
41103576--41103696	42	2.9	41	83	4	143	46	18	20	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41105410--41105466	30	1.9	30	85	7	80	26	17	26	29	1.97
41108226--41108275	25	2.0	25	84	7	66	34	0	2	64	1.05
41112154--41112197	19	2.3	19	88	0	70	11	13	4	70	1.31
41121459--41121637	88	2.0	88	90	3	277	37	8	16	36	1.79
41122345--41122383	20	1.9	21	85	15	55	41	5	12	41	1.65
41124211--41124356	65	2.2	65	96	0	265	17	10	28	43	1.82
41148653--41148770	60	2.0	60	93	0	200	16	31	13	38	1.88
41154188--41154259	35	2.0	36	97	2	137	27	11	34	26	1.90
41155818--41155852	18	2.0	18	88	5	54	62	0	0	37	0.95
41159715--41159764	23	2.3	21	81	18	59	34	6	2	58	1.34
41161348--41161446	49	2.0	50	92	2	164	35	18	13	33	1.89
41161470--41161556	26	3.2	26	65	15	68	35	8	11	44	1.70
41161448--41161556	55	2.0	55	92	0	182	32	11	11	45	1.74
41165426--41165463	13	2.9	13	100	0	76	44	15	7	31	1.75
41167155--41167179	13	1.9	13	100	0	50	64	8	0	28	1.22
41170426--41170465	11	3.6	11	89	0	62	52	17	10	20	1.72
41172883--41172915	2	16.5	2	100	0	66	51	0	0	48	1.00
41177014--41177112	32	3.1	32	85	0	144	34	22	13	30	1.92
41176987--41177111	64	2.0	64	87	3	180	36	21	13	28	1.92
41177765--41177799	18	1.9	18	94	0	61	37	11	20	31	1.88
41177777--41177824	25	1.9	25	91	0	78	39	14	18	27	1.90
41177761--41177859	43	2.3	43	89	0	144	36	16	20	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41180123--41180173	20	2.8	17	78	16	57	27	7	3	60	1.42
41185923--41185997	39	1.9	39	91	0	123	30	32	8	29	1.86
41187726--41187794	20	3.5	20	71	11	70	39	18	8	33	1.82
41187714--41187792	39	2.0	39	97	0	149	36	15	8	39	1.78
41197425--41197746	162	2.0	163	91	1	522	31	17	23	27	1.97
41198990--41199048	4	13.8	4	75	22	50	28	1	0	69	0.98
41198993--41199026	10	3.6	10	92	7	54	35	0	0	64	0.94
41198985--41199048	24	2.6	25	82	4	78	29	1	0	68	0.99
41201556--41201760	108	1.9	108	83	4	270	33	14	23	28	1.94
41214925--41214952	14	2.0	14	100	0	56	64	0	7	28	1.20
41224081--41224124	19	2.3	19	88	7	63	59	27	2	11	1.44
41227502--41227555	29	1.9	27	85	7	72	48	1	11	38	1.50
41231982--41232025	23	1.9	23	86	9	63	40	0	2	56	1.11
41232121--41232149	14	2.0	15	93	6	51	13	10	0	75	1.04
41232141--41232480	179	1.9	180	83	5	438	30	10	9	48	1.70
41232862--41232920	21	2.9	21	82	9	61	35	0	5	59	1.20
41234048--41234159	27	4.1	27	82	0	107	22	24	16	36	1.94
41239127--41239184	25	2.3	25	84	3	71	39	15	10	34	1.81
41239141--41239191	25	2.0	25	100	0	102	39	15	7	37	1.77
41240896--41240955	22	2.8	20	73	16	59	58	1	3	36	1.25
41247496--41247554	24	2.4	24	82	2	73	42	1	37	18	1.61
41252390--41252461	33	2.1	35	89	5	112	44	20	6	27	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41265152--41265189	19	2.0	19	89	0	58	28	0	21	50	1.49
41273085--41273126	17	2.5	17	84	11	59	45	0	4	50	1.23
41280570--41280637	34	2.0	34	82	5	84	30	23	26	19	1.98
41281026--41281063	14	2.7	14	100	0	76	47	5	7	39	1.55
41286671--41286716	25	2.0	23	83	12	58	67	2	8	21	1.29
41291441--41291471	14	2.2	14	94	0	53	22	16	19	41	1.89
41292911--41293017	51	2.1	52	83	1	135	32	18	8	40	1.81
41294442--41294484	19	2.3	19	80	4	52	44	13	0	41	1.44
41298067--41298119	21	2.5	22	87	6	74	37	15	41	5	1.70
41301813--41301975	46	3.6	45	75	6	132	26	22	22	28	1.99
41302731--41302801	35	2.0	35	91	0	115	29	4	23	42	1.73
41304838--41304872	17	2.0	17	88	5	52	14	45	28	11	1.79
41317165--41317208	22	2.0	21	83	12	54	40	0	0	59	0.98
41319742--41319816	38	2.0	38	94	0	132	34	9	12	44	1.74
41319802--41319847	23	2.0	23	83	4	58	45	6	6	41	1.56
41325493--41325558	23	3.0	23	84	4	73	46	6	1	45	1.37
41325585--41325658	17	4.5	17	68	21	59	54	1	4	40	1.28
41325534--41325673	48	2.9	48	84	4	176	52	2	4	40	1.36
41339598--41339674	14	5.0	15	71	20	52	42	14	9	33	1.77
41339614--41339653	20	2.0	20	90	0	62	50	12	10	27	1.72
41339602--41339668	34	1.9	35	90	3	109	46	13	8	31	1.74
41341795--41341852	29	2.0	29	100	0	116	34	17	24	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41345785--41346052	105	2.6	103	89	5	412	29	30	21	18	1.97
41345921--41345974	27	2.0	27	100	0	108	29	33	25	11	1.91
41370871--41370966	44	2.2	45	84	5	124	23	21	21	32	1.98
41376212--41376238	2	13.5	2	100	0	54	51	0	0	48	1.00
41376705--41376750	24	1.9	24	81	0	56	41	8	10	39	1.71
41380505--41380587	30	2.8	30	84	0	103	22	25	22	28	1.99
41380540--41380605	30	2.2	30	83	5	80	27	21	21	30	1.98
41390163--41390228	16	4.2	16	68	12	57	24	10	42	22	1.85
41390149--41390238	30	2.9	30	75	9	83	26	13	35	24	1.92
41391736--41391760	12	2.1	12	100	0	50	32	8	16	44	1.76
41393513--41393677	14	11.5	15	71	11	96	21	17	28	32	1.96
41393520--41393701	29	6.4	29	72	7	99	21	19	27	31	1.97
41393643--41393677	15	2.4	14	90	4	52	20	8	31	40	1.82
41393520--41393701	85	2.2	85	84	3	242	21	19	27	31	1.97
41394331--41394355	13	1.9	13	100	0	50	48	8	16	28	1.74
41398038--41398084	18	2.6	19	80	12	55	59	0	0	40	0.97
41403618--41403953	82	4.1	81	82	3	386	46	13	12	27	1.79
41403618--41403959	164	2.1	164	83	2	436	46	13	12	26	1.79
41404893--41404926	2	17.0	2	100	0	68	50	0	0	50	1.00
41415852--41415884	17	1.9	17	93	0	57	24	9	9	57	1.58
41419353--41419706	163	2.2	162	86	2	476	47	13	12	26	1.79
41419349--41419707	82	4.4	82	85	1	463	46	13	13	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41423427--41423468	20	2.1	20	90	0	66	40	11	9	38	1.75
41433233--41433589	164	2.2	163	82	5	450	47	13	11	27	1.77
41433230--41433589	82	4.4	82	81	3	395	47	13	11	27	1.77
41433942--41434280	82	4.1	82	86	0	435	46	15	12	25	1.82
41434538--41434612	34	2.2	34	87	0	105	13	52	14	20	1.75
41435592--41435634	3	14.3	3	100	0	86	32	0	0	67	0.91
41435779--41435834	10	6.0	10	72	16	57	44	7	1	46	1.41
41435783--41435845	18	3.5	17	75	14	56	42	9	1	46	1.46
41435688--41435954	87	3.1	89	79	10	272	38	6	1	53	1.37
41439369--41439410	12	3.6	12	83	3	59	83	2	14	0	0.75

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