genome.fa.s3.2.7.7.80.10.50.1000.113.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  113  of  150  ( 17918 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)
34975164--34975265	19	5.3	19	91	4	168	37	12	15	34	1.86
34975908--34975974	25	2.7	25	81	2	82	31	1	2	64	1.18
34976016--34976072	23	2.4	24	77	11	64	36	1	3	57	1.26
34983381--34983932	44	12.5	44	75	6	409	27	16	26	29	1.96
34983382--34983933	132	4.2	133	92	1	896	27	16	25	30	1.96
34983421--34983959	265	2.0	265	88	1	785	28	16	25	28	1.97
34984453--34984585	19	6.8	19	88	4	185	36	10	15	37	1.81
34984454--34984585	59	2.3	59	93	1	221	37	10	14	37	1.81
34993249--34993531	130	2.2	132	92	2	480	28	22	25	23	1.99
34998733--34998798	13	5.5	13	72	20	72	50	13	0	36	1.42
34998731--34998800	23	3.0	23	95	0	122	48	14	0	37	1.44
34998931--34998968	18	2.1	18	95	0	67	18	23	13	44	1.85
35004272--35004323	26	2.0	26	100	0	104	57	26	0	15	1.38
35011436--35011507	29	2.5	29	97	0	135	38	4	15	41	1.66
35035609--35035647	12	3.2	12	85	0	51	20	23	5	51	1.67
35035896--35036037	50	2.8	50	83	2	169	20	28	23	28	1.99
35044828--35044880	27	1.9	28	80	3	63	20	32	33	13	1.91
35044945--35045003	4	14.0	4	80	16	50	72	0	27	0	0.84
35044946--35045010	14	4.6	14	80	3	85	73	0	26	0	0.83
35044934--35044988	5	11.6	5	78	7	53	65	0	34	0	0.93
35044946--35045023	29	2.7	30	84	4	99	71	0	28	0	0.86
35044934--35045032	24	4.2	24	76	6	94	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35044950--35045052	53	1.9	53	80	7	120	69	0	29	0	0.94
35044935--35045021	10	7.2	13	71	22	50	68	0	31	0	0.89
35045390--35046229	156	5.6	155	77	12	790	52	6	10	30	1.59
35045390--35046229	307	2.8	305	88	5	1214	52	6	10	30	1.59
35046235--35046292	28	2.1	28	87	6	84	51	1	3	43	1.28
35048123--35048169	12	3.9	12	85	0	67	29	40	27	2	1.68
35048669--35049244	77	7.4	77	94	0	999	40	9	7	41	1.67
35052140--35052351	40	5.4	41	70	16	126	49	11	4	33	1.60
35052213--35052259	23	2.0	23	84	8	60	59	14	2	23	1.46
35052585--35052630	3	16.0	3	95	4	78	0	30	0	69	0.89
35053508--35053577	30	2.3	30	83	14	90	60	1	0	38	1.06
35054221--35054272	22	2.3	22	79	20	63	46	13	1	38	1.54
35054225--35054270	22	2.0	24	87	12	69	43	15	2	39	1.59
35054221--35054275	24	2.5	21	76	21	58	47	12	1	38	1.52
35056898--35056942	22	2.0	23	83	12	58	44	0	13	42	1.43
35056977--35057192	64	3.4	66	80	8	216	34	7	17	40	1.78
35057012--35057188	64	2.8	64	84	5	227	33	7	18	40	1.79
35057308--35057414	41	2.6	41	90	0	160	21	18	22	37	1.94
35064486--35064529	22	2.0	22	90	0	70	45	13	4	36	1.64
35081448--35081615	54	3.1	54	83	6	207	41	18	19	20	1.90
35081448--35081588	27	5.2	27	87	1	194	41	18	19	20	1.91
35081448--35081618	81	2.1	81	79	8	195	40	18	19	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35081495--35081616	27	4.5	26	88	4	120	42	19	19	18	1.89
35081769--35081826	26	2.2	26	87	3	80	22	22	17	37	1.93
35081777--35081855	26	3.0	26	83	1	95	22	21	17	37	1.94
35082424--35082478	28	2.0	28	92	0	92	25	25	21	27	2.00
35084277--35084352	26	2.9	25	84	9	89	39	14	19	26	1.90
35085990--35086035	21	2.3	20	82	10	58	30	13	8	47	1.72
35086063--35086111	22	2.2	22	88	0	71	26	14	12	46	1.79
35086213--35086251	20	2.0	20	89	0	60	30	12	12	43	1.81
35087423--35087508	35	2.5	35	81	9	106	45	0	4	50	1.22
35087450--35087510	24	2.5	23	80	15	61	45	0	4	49	1.23
35088813--35088889	3	25.7	3	94	0	136	35	0	1	63	1.03
35089040--35089103	27	2.5	27	80	12	73	39	0	26	34	1.57
35089248--35089343	39	2.5	37	78	6	104	22	22	26	28	1.99
35093077--35093106	12	2.6	12	94	5	53	53	10	0	36	1.35
35095427--35095549	27	4.6	27	83	5	124	34	17	22	26	1.96
35095427--35095556	54	2.4	53	84	3	154	33	19	22	25	1.97
35095616--35095707	24	3.8	24	77	5	96	28	7	20	43	1.79
35097706--35097753	15	3.2	14	78	16	51	68	0	2	29	1.01
35097713--35097749	18	2.0	19	89	5	58	59	0	2	37	1.12
35103013--35103047	17	2.1	16	89	5	52	37	0	2	60	1.12
35106490--35106696	103	2.0	103	100	0	414	21	32	13	31	1.92
35116859--35116949	25	3.3	25	75	18	74	20	3	14	61	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35117369--35117402	17	2.0	17	94	0	59	32	17	14	35	1.91
35118815--35118848	18	1.9	17	94	5	59	41	2	14	41	1.61
35119019--35119065	2	23.5	2	95	0	85	48	0	0	51	1.00
35121001--35121106	45	2.3	46	88	1	160	40	19	17	21	1.91
35122276--35122325	25	2.0	25	84	7	66	46	2	6	46	1.39
35122414--35122458	5	9.0	5	100	0	90	60	0	0	40	0.97
35129036--35129137	44	2.3	44	87	0	141	30	2	24	42	1.69
35129408--35129449	13	3.1	14	83	10	52	73	4	0	21	1.01
35129872--35129927	25	2.4	22	82	8	58	64	1	1	32	1.14
35135739--35135830	43	2.1	43	97	0	175	42	7	32	17	1.77
35140399--35140688	27	10.7	27	84	2	269	44	20	17	17	1.87
35140399--35140688	54	5.4	54	84	2	323	44	20	17	17	1.87
35140399--35140705	81	3.8	80	81	6	323	43	19	18	17	1.88
35140884--35140956	26	2.8	26	85	8	103	17	21	24	35	1.95
35144073--35144100	2	14.0	2	100	0	56	50	0	0	50	1.00
35146374--35146406	16	2.1	16	100	0	66	24	6	6	63	1.40
35148264--35148303	17	2.4	16	88	12	55	50	7	7	35	1.59
35148510--35148716	114	1.8	114	89	2	326	22	19	13	44	1.85
35148510--35148717	57	3.6	57	88	1	292	22	19	12	44	1.85
35160310--35160513	57	3.6	56	88	4	275	22	17	14	45	1.84
35164253--35164316	20	3.2	20	78	10	69	39	9	6	45	1.62
35164817--35164873	28	2.0	29	86	10	82	49	0	1	49	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35166805--35166838	17	2.0	17	100	0	68	47	11	23	17	1.81
35173217--35173276	28	2.1	28	82	11	70	30	0	13	56	1.37
35173605--35173661	30	1.9	30	85	0	78	26	19	21	33	1.97
35173745--35173773	10	2.7	11	89	10	51	27	0	13	58	1.36
35174892--35174922	11	2.8	11	90	0	53	32	0	0	67	0.91
35175044--35175123	30	2.8	29	90	7	128	53	16	3	26	1.59
35175152--35175200	22	2.2	22	81	0	62	59	8	12	20	1.58
35178065--35178097	13	2.6	13	90	4	50	66	0	9	24	1.20
35179039--35179097	23	2.6	23	94	5	102	45	20	0	33	1.51
35183630--35183709	20	4.1	20	86	3	108	26	6	20	47	1.73
35183630--35183709	39	2.0	40	87	2	117	26	6	20	47	1.73
35183803--35183854	19	2.7	19	82	8	70	32	7	13	46	1.72
35183994--35184032	20	2.0	20	89	0	60	33	5	15	46	1.68
35187593--35187622	2	15.0	2	100	0	60	50	0	0	50	1.00
35190939--35190986	24	2.0	24	87	0	69	12	64	12	10	1.50
35215827--35216018	50	3.8	50	87	0	258	22	28	22	26	1.99
35231911--35231965	26	2.1	25	80	12	58	36	9	5	49	1.58
35233685--35233728	18	2.4	18	88	0	61	18	27	9	45	1.79
35237188--35237474	126	2.3	125	94	0	493	27	20	18	33	1.96
35237514--35237943	95	4.5	96	88	5	611	38	17	2	41	1.62
35237513--35237936	193	2.2	195	89	4	648	38	17	2	41	1.61
35238017--35238118	40	2.5	41	81	6	129	22	26	23	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35239040--35239131	41	2.2	42	92	5	161	21	10	23	43	1.84
35239537--35239569	17	1.9	17	88	11	50	21	0	33	45	1.52
35243851--35243890	16	2.5	16	91	0	62	35	32	5	27	1.79
35244581--35244625	20	2.2	20	92	0	72	20	11	24	44	1.83
35246340--35246381	5	8.4	5	100	0	84	40	59	0	0	0.97
35246430--35246473	6	6.8	6	82	12	52	61	15	2	20	1.45
35246422--35246472	14	3.8	14	79	10	61	64	11	1	21	1.36
35246422--35246472	20	2.5	21	81	15	63	64	11	1	21	1.36
35246422--35246473	26	2.0	26	88	0	77	63	13	1	21	1.39
35250398--35250430	9	3.7	9	91	0	57	24	6	18	51	1.68

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