genome.fa.s5.2.7.7.80.10.50.1000.162.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  162  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)
49510367--49510411	23	2.0	23	81	0	54	22	0	15	62	1.33
49510873--49510909	2	18.5	2	100	0	74	51	0	0	48	1.00
49516026--49516058	14	2.3	15	89	5	50	27	12	33	27	1.92
49516158--49516184	2	13.5	2	100	0	54	51	0	48	0	1.00
49517454--49517685	44	5.3	43	63	12	121	24	28	26	20	1.99
49517405--49518158	88	8.6	88	90	0	1148	27	27	25	19	1.99
49518160--49518257	44	2.2	44	85	3	126	26	18	24	30	1.98
49518292--49518696	89	4.7	83	73	11	287	29	20	21	28	1.98
49518369--49518922	45	12.7	44	72	12	313	30	21	22	25	1.99
49518243--49518877	44	14.6	44	70	13	255	30	20	21	27	1.98
49518240--49518705	173	2.7	172	84	4	555	30	19	21	27	1.98
49518369--49518934	217	2.6	217	82	4	719	30	21	22	26	1.99
49519433--49519490	19	2.7	22	84	10	68	36	8	17	37	1.80
49519674--49519718	23	2.0	23	81	0	54	22	0	15	62	1.33
49519737--49519769	15	2.1	16	94	5	59	30	9	0	60	1.27
49520177--49520223	2	23.5	2	95	0	85	53	0	0	46	1.00
49520277--49520334	2	30.0	2	82	6	75	44	0	1	53	1.10
49524075--49524104	15	2.0	15	93	0	51	56	0	0	43	0.99
49542852--49542924	18	4.1	18	76	13	78	30	21	17	30	1.97
49543140--49543222	22	3.8	21	71	13	69	27	21	18	32	1.96
49544186--49544226	13	3.1	14	75	10	50	51	17	14	17	1.77
49552267--49552296	14	2.1	14	93	0	51	50	10	3	36	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49554586--49554670	44	1.9	44	80	4	100	22	29	20	28	1.98
49554615--49555086	44	10.8	43	69	11	235	24	25	20	29	1.99
49554526--49555084	88	6.4	88	70	11	342	25	25	19	29	1.98
49555310--49555650	43	7.9	43	67	14	173	25	24	20	29	1.99
49555263--49555792	130	4.1	130	87	3	746	26	23	20	30	1.98
49556981--49557023	21	2.0	21	90	4	68	16	11	0	72	1.13
49556982--49557037	22	2.6	21	82	5	67	16	8	0	75	1.05
49561888--49561927	2	20.0	2	89	0	53	50	7	0	42	1.30
49561888--49561927	12	3.3	12	89	0	62	50	7	0	42	1.30
49566392--49566417	13	2.0	13	100	0	52	61	0	0	38	0.96
49566452--49566485	11	3.0	11	87	8	50	35	0	0	64	0.94
49566624--49566655	13	2.5	13	94	0	55	40	0	12	46	1.42
49566944--49566970	7	3.9	7	100	0	54	74	0	0	25	0.83
49576906--49576960	27	2.0	28	85	7	76	65	1	0	32	1.03
49577074--49577115	3	14.0	3	89	0	66	64	4	0	30	1.14
49578906--49579007	29	3.5	29	81	5	134	20	27	29	22	1.99
49580761--49580807	24	1.9	25	82	4	60	48	19	2	29	1.60
49583276--49583438	21	7.8	20	73	7	78	44	16	21	17	1.86
49583333--49583446	21	5.4	21	80	0	138	43	16	21	17	1.87
49583298--49583447	42	3.6	42	89	0	201	45	16	20	17	1.86
49588641--49588985	91	3.6	98	86	8	400	46	3	2	48	1.31
49588611--49588908	91	3.3	91	95	0	524	46	3	3	46	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49589049--49589090	15	2.9	15	82	10	52	47	0	0	52	1.00
49593607--49593675	29	2.3	29	83	9	86	55	2	0	42	1.15
49593607--49593675	30	2.3	30	85	7	88	55	2	0	42	1.15
49604809--49605169	44	8.1	44	80	6	188	29	21	18	31	1.96
49604680--49605215	138	3.9	138	76	10	390	29	21	18	30	1.97
49604813--49605171	88	4.0	88	82	5	400	28	21	18	31	1.97
49604785--49605214	138	3.2	134	78	7	458	29	21	18	30	1.97
49609915--49610025	55	2.0	55	98	0	213	10	41	3	44	1.57
49609931--49610018	26	3.3	26	65	20	72	11	38	3	46	1.57
49618289--49618326	18	2.1	18	95	0	67	5	18	5	71	1.25
49619600--49619630	14	2.3	13	94	5	53	38	9	0	51	1.35
49621560--49621600	7	5.9	7	97	0	64	29	36	0	34	1.58
49622500--49622533	15	2.3	15	89	0	50	8	0	5	85	0.75
49627284--49627312	3	9.7	3	100	0	58	31	0	0	68	0.89
49631937--49631969	17	2.0	17	94	5	59	45	0	0	54	0.99
49632072--49632292	108	2.0	108	90	1	345	38	7	28	24	1.82
49634304--49634514	105	2.0	105	100	0	422	31	25	8	35	1.86
49635261--49635293	15	2.3	15	89	5	50	0	21	0	78	0.75
49639095--49639249	36	4.0	36	79	15	175	28	20	14	36	1.92
49639131--49639285	46	3.6	46	78	16	204	28	21	12	36	1.91
49639052--49639285	82	2.9	82	94	1	402	28	21	13	35	1.92
49641084--49641167	28	2.7	31	73	17	77	25	25	26	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49641087--49641186	33	3.2	32	73	13	91	29	23	24	24	1.99
49647115--49647154	19	2.1	19	100	0	80	27	5	20	47	1.70
49649244--49649450	35	6.1	35	84	6	255	41	17	22	17	1.90
49649241--49649449	67	3.1	68	85	6	257	41	17	22	17	1.90
49649254--49649450	102	1.9	102	93	0	340	40	18	23	17	1.91
49650714--49650755	22	1.9	22	100	0	84	23	33	14	28	1.94
49657835--49657967	70	1.9	67	87	4	194	42	12	13	31	1.82
49660965--49661004	14	2.9	14	84	0	53	35	7	15	42	1.75
49662459--49663860	369	3.8	368	81	3	1458	23	22	17	35	1.95
49662459--49663767	123	10.6	123	81	2	1261	24	22	17	35	1.95
49662631--49664082	123	11.9	120	80	4	398	23	22	18	36	1.95
49673777--49673836	30	1.9	33	86	10	90	36	10	13	40	1.78
49674133--49674170	16	2.4	16	95	0	67	15	5	0	78	0.91
49675928--49676001	36	2.0	39	86	7	109	62	0	4	33	1.14
49676148--49676698	229	2.4	229	93	0	935	34	2	17	44	1.64
49678204--49678247	21	2.1	21	86	0	61	2	22	47	27	1.63
49680381--49680465	11	8.0	11	74	18	65	44	1	30	23	1.61
49680365--49680464	51	2.0	51	90	4	157	46	1	29	24	1.59
49682016--49682051	16	2.2	16	95	0	63	25	2	33	38	1.70
49682366--49682407	15	2.7	16	82	14	52	52	2	0	45	1.13
49682375--49682416	15	2.9	15	82	10	52	52	0	0	47	1.00
49682485--49682536	15	3.6	15	80	12	56	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49682364--49682661	120	2.5	121	92	4	487	49	4	2	43	1.36
49682702--49682749	26	1.9	25	84	16	64	52	2	0	45	1.12
49682657--49682866	92	2.3	92	82	7	232	49	3	2	44	1.35
49682692--49682885	92	2.1	92	86	5	268	46	4	3	45	1.41
49686375--49686557	48	3.8	47	97	0	312	36	7	6	49	1.56
49686387--49686557	25	7.1	25	71	17	155	35	7	7	49	1.58
49686392--49686524	23	5.6	23	75	13	135	34	8	6	50	1.59
49687722--49687797	23	3.3	23	96	0	143	44	26	7	21	1.79
49687783--49687828	22	2.1	21	88	4	65	60	17	4	17	1.51
49688721--49688784	33	1.9	34	87	6	96	34	4	17	43	1.69
49689112--49689147	17	2.1	17	94	0	63	69	11	8	11	1.37
49689865--49689896	14	2.4	14	94	5	57	50	37	6	6	1.53
49694479--49694644	43	3.9	42	84	3	215	22	18	29	28	1.98
49698855--49698882	6	4.7	6	100	0	56	46	0	35	17	1.49
49698886--49699076	51	3.8	49	79	11	201	24	18	27	29	1.98
49698886--49699068	99	1.8	101	89	5	291	24	18	27	30	1.98
49698990--49699070	26	3.2	26	64	22	62	23	14	28	33	1.94
49699251--49699282	16	2.0	16	93	0	55	59	0	15	25	1.36
49704057--49704084	6	4.7	6	100	0	56	46	0	35	17	1.49
49704088--49704222	51	2.7	50	84	4	173	23	18	26	31	1.98
49704448--49704479	16	2.0	16	93	0	55	59	0	15	25	1.36
49710141--49710306	25	6.7	25	69	15	96	34	18	26	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49712778--49712803	13	2.0	13	100	0	52	30	7	15	46	1.74
49715307--49715449	63	2.3	63	77	0	151	24	28	21	25	1.99
49716760--49716935	39	4.5	39	79	3	176	40	21	6	31	1.78
49731785--49731824	6	6.7	6	94	0	62	52	5	25	17	1.64
49731968--49732023	27	2.1	27	90	6	87	46	14	12	26	1.80
49750851--49750981	25	5.2	24	67	14	77	33	20	21	24	1.97
49750886--49751027	49	2.9	49	77	9	139	34	19	25	21	1.96
49754778--49754817	6	6.5	6	91	2	62	67	0	17	15	1.23
49755308--49755347	21	1.9	21	84	0	53	27	5	7	60	1.45
49755355--49755402	18	2.7	18	84	15	64	39	0	0	60	0.97

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