genome.fa.s4.2.7.7.80.10.50.1000.151.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  151  of  198  ( 23681 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)
47811417--47811472	26	2.1	27	87	6	80	30	0	1	67	1.01
47815455--47815486	6	5.3	6	100	0	64	65	0	0	34	0.93
47823471--47823596	65	1.9	65	100	0	252	42	19	19	18	1.89
47823879--47823934	9	6.0	9	72	15	51	17	5	5	71	1.24
47824972--47825070	49	2.0	49	98	0	189	44	16	11	28	1.81
47826013--47826050	13	2.9	13	96	0	67	26	7	26	39	1.83
47826636--47826665	12	2.5	12	100	0	60	33	10	10	46	1.71
47834307--47834352	18	2.4	18	82	10	56	43	2	2	52	1.25
47834364--47834393	14	2.1	14	100	0	60	73	0	6	20	1.05
47834390--47834438	9	5.4	9	80	0	53	75	4	14	6	1.14
47834381--47834438	18	3.2	18	87	2	80	74	3	13	8	1.19
47835190--47835227	18	2.1	18	85	9	51	42	0	18	39	1.50
47835347--47835457	23	5.0	23	81	7	97	19	21	22	36	1.96
47835360--47835443	23	3.8	22	83	9	100	15	23	26	34	1.95
47859159--47859192	17	2.1	17	88	5	52	29	44	11	14	1.81
47859281--47859385	45	2.3	45	75	0	120	32	20	15	32	1.93
47859339--47859385	23	2.1	23	84	4	60	29	19	17	34	1.94
47859281--47859385	22	4.7	23	69	6	81	32	20	15	32	1.93
47859413--47859452	16	2.5	16	87	0	62	37	25	12	25	1.91
47859428--47859468	15	2.6	16	84	7	57	41	21	14	21	1.89
47866748--47866836	23	3.9	23	78	0	97	35	15	15	32	1.90
47867082--47867124	23	2.0	22	81	9	52	39	2	4	53	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47867133--47867181	15	3.3	15	82	0	71	42	6	4	46	1.47
47867141--47867215	15	4.8	16	77	12	66	37	9	5	48	1.58
47870848--47870918	16	4.4	16	83	1	88	43	9	5	40	1.61
47880588--47880624	18	2.1	18	100	0	74	35	27	5	32	1.79
47881357--47881391	6	5.7	6	96	3	61	51	17	17	14	1.77
47881835--47881880	18	2.6	18	86	3	58	13	36	30	19	1.90
47883644--47883677	16	2.1	16	88	0	50	64	2	14	17	1.40
47887352--47887425	29	2.5	29	82	6	78	10	32	10	45	1.74
47887799--47887842	6	7.3	6	100	0	88	81	0	0	18	0.68
47888443--47888482	19	2.2	19	86	8	57	42	5	0	52	1.23
47888554--47888585	15	2.1	15	94	0	55	40	15	0	43	1.47
47889761--47889796	11	3.4	11	88	3	56	0	22	13	63	1.29
47892619--47892645	13	2.1	13	100	0	54	29	18	7	44	1.77
47893501--47893571	36	2.0	35	89	8	108	38	26	1	33	1.65
47901061--47901136	30	2.5	30	78	0	89	31	15	21	31	1.94
47904344--47904378	11	3.2	11	91	0	52	54	0	5	40	1.24
47905733--47905766	17	2.0	17	94	0	59	52	2	11	32	1.53
47906673--47906714	21	2.0	21	85	0	57	30	7	19	42	1.78
47915197--47915260	32	2.0	32	96	0	119	17	21	20	40	1.91
47921701--47921749	21	2.3	21	89	0	71	26	28	20	24	1.99
47921805--47921857	22	2.4	22	84	6	63	26	16	24	32	1.97
47922118--47922565	222	2.0	222	96	0	815	35	12	21	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47922832--47922974	29	5.0	29	79	0	144	38	19	25	16	1.92
47927669--47927723	25	2.2	25	86	3	74	21	3	3	70	1.18
47931052--47931102	7	7.3	7	86	0	75	43	27	0	29	1.55
47932620--47932718	29	3.4	29	81	2	128	39	22	25	13	1.90
47940962--47941026	32	2.1	32	97	2	123	30	9	12	47	1.72
47941587--47941646	22	2.7	23	94	5	113	66	13	20	0	1.24
47947182--47947246	32	2.1	32	94	2	114	32	9	10	47	1.70
47948607--47948654	24	2.0	24	95	0	87	37	2	12	47	1.53
47953919--47953974	24	2.3	24	81	0	67	51	8	7	32	1.60
47962820--47962845	13	2.0	13	100	0	52	15	0	0	84	0.62
47962817--47962858	21	2.0	21	85	0	57	16	2	2	78	0.96
47976665--47976710	20	2.5	19	77	22	53	28	4	2	65	1.23
47979777--47979909	55	2.4	55	84	2	169	29	8	14	48	1.73
47984318--47984632	161	2.0	161	98	0	612	30	12	11	45	1.76
47989551--47989586	15	2.4	15	95	0	63	61	2	8	27	1.39
47993331--47993398	24	2.8	25	79	16	79	13	27	20	38	1.90
47993331--47993398	25	2.8	23	82	8	82	13	27	20	38	1.90
47993381--47993437	25	2.3	25	84	0	78	21	26	22	29	1.99
47995065--47995204	39	3.6	39	88	1	210	30	2	20	46	1.65
48000317--48000453	55	2.5	55	85	2	168	24	10	13	51	1.73
48000439--48000595	61	2.6	60	86	6	208	21	10	17	50	1.76
48000565--48000649	34	2.3	36	84	15	104	21	10	17	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48000500--48000704	95	2.2	95	92	0	338	21	9	17	51	1.74
48000636--48000759	55	2.3	55	88	0	176	26	8	14	50	1.70
48000324--48000880	156	3.7	150	85	4	722	23	9	15	51	1.72
48002978--48003113	39	3.5	39	82	6	152	45	19	4	30	1.70
48005724--48005756	16	2.1	16	94	0	57	36	21	3	39	1.69
48005887--48005929	20	2.2	20	91	8	70	20	25	2	51	1.60
48010674--48010703	3	10.0	3	92	0	51	63	0	3	33	1.11
48014442--48014481	19	2.1	19	90	0	62	42	12	20	25	1.86
48038527--48038673	25	5.9	24	66	17	68	21	23	21	34	1.97
48038570--48038729	73	2.2	73	77	6	171	21	25	20	33	1.97
48042136--48042169	16	2.1	16	88	0	50	38	2	14	44	1.61
48046499--48046538	7	5.9	7	86	13	57	70	0	17	12	1.18
48046502--48046538	13	2.8	13	91	4	56	72	0	16	10	1.10
48046499--48046540	21	2.1	19	91	8	66	66	0	19	14	1.25
48048619--48048789	88	1.9	88	80	9	197	28	18	24	28	1.98
48047895--48048755	132	6.5	131	87	2	1190	29	18	23	28	1.98
48050255--48050284	3	10.0	3	92	0	51	33	3	0	63	1.11
48050324--48050371	24	2.0	25	92	8	82	27	6	0	66	1.15
48050328--48050384	25	2.4	23	78	16	64	29	3	0	66	1.08
48050526--48050559	16	2.1	16	94	0	59	38	0	14	47	1.45
48053739--48053778	7	5.9	7	86	13	57	72	0	15	12	1.12
48055015--48055150	45	3.1	44	72	4	130	30	27	23	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48055135--48055381	132	1.9	132	90	1	397	29	17	24	28	1.98
48055187--48055608	227	1.9	227	88	2	641	30	18	22	28	1.97
48055414--48055703	132	2.2	132	88	6	435	28	19	22	29	1.98
48055558--48055728	88	1.9	88	81	6	204	28	18	23	29	1.98
48055414--48055765	132	2.7	132	84	5	356	28	19	23	28	1.98
48057197--48057247	3	17.0	3	95	0	93	33	1	0	64	1.05
48057490--48057523	16	2.1	16	88	0	50	38	2	14	44	1.61
48062211--48062345	71	1.9	71	90	0	216	24	13	27	34	1.93
48064603--48064752	74	2.0	74	86	0	210	32	14	29	23	1.94
48080604--48080654	21	2.4	22	80	9	70	33	25	21	19	1.97
48081108--48081141	17	1.9	18	88	5	52	35	23	0	41	1.55
48081610--48081655	3	15.7	3	78	13	51	58	2	0	39	1.10
48081610--48081656	13	3.7	13	82	2	60	57	2	0	40	1.11
48083690--48083749	24	2.6	24	84	5	70	28	10	21	40	1.85
48083854--48083944	24	3.8	24	77	8	76	36	10	14	38	1.81
48083979--48084133	46	3.3	47	75	8	156	33	12	16	36	1.87
48083960--48084144	46	4.0	47	72	11	148	33	12	17	36	1.88
48084369--48084783	54	7.9	54	74	8	316	38	13	20	26	1.90
48089129--48089202	31	2.4	31	81	6	87	43	17	12	27	1.84
48090492--48090532	22	1.9	21	85	5	55	70	0	12	17	1.16
48090823--48090854	13	2.5	13	94	0	55	15	34	0	50	1.45
48097678--48097721	19	2.3	19	88	7	63	45	0	4	50	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48098585--48098628	19	2.3	19	92	7	72	47	0	0	52	1.00
48098643--48098687	19	2.4	18	82	7	63	42	0	6	51	1.28
48100489--48100557	30	2.3	31	85	12	90	44	20	10	24	1.82
48102301--48102427	21	6.0	21	82	5	105	14	21	17	46	1.84
48109391--48109687	50	5.8	50	84	3	310	26	21	29	22	1.99
48112501--48112535	2	18.0	2	88	5	54	45	0	0	54	0.99
48119916--48119966	24	2.1	24	85	7	68	29	0	1	68	1.00
48121260--48121356	42	2.3	42	96	0	176	20	30	29	18	1.97
48122484--48122559	33	2.3	34	81	4	84	26	23	17	32	1.96
48123071--48123111	19	2.1	20	95	4	75	46	12	9	31	1.74

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