genome.fa.s2.2.7.7.80.10.50.1000.116.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  116  of  206  ( 24623 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)
34551975--34552078	16	6.2	17	76	8	88	49	12	11	26	1.75
34551962--34552047	18	4.8	18	78	7	86	50	13	9	26	1.72
34552277--34552316	20	2.0	21	85	5	55	40	10	12	37	1.77
34552610--34552651	20	2.2	20	87	12	61	0	21	0	78	0.75
34552607--34552649	14	3.0	14	80	6	50	0	27	0	72	0.85
34552967--34553058	9	9.3	10	80	12	50	2	18	0	79	0.84
34552984--34553062	11	7.0	11	82	15	83	0	21	0	78	0.75
34552972--34553059	22	4.3	21	80	15	96	1	19	0	79	0.79
34552971--34553062	26	3.7	24	80	15	98	1	19	0	79	0.80
34552980--34553062	4	20.5	4	77	15	82	0	21	0	78	0.75
34552998--34553068	7	10.7	7	77	15	71	0	23	0	76	0.79
34553167--34553222	22	2.4	24	82	11	73	0	23	5	71	1.06
34553574--34553701	30	4.2	30	77	7	116	39	3	21	35	1.70
34553582--34553700	32	3.9	30	79	6	96	41	3	22	32	1.70
34553627--34553702	32	2.4	32	89	4	111	40	0	21	38	1.53
34555100--34555136	18	2.1	18	94	0	65	24	27	8	40	1.83
34555568--34555614	24	1.9	25	95	4	87	44	0	14	40	1.46
34555666--34556260	23	26.8	24	81	12	459	48	25	0	26	1.53
34555666--34556260	44	13.4	43	85	6	585	48	25	0	26	1.53
34555666--34556260	67	8.9	66	85	6	629	48	25	0	26	1.53
34556096--34556262	21	7.7	22	87	8	209	47	28	0	23	1.56
34556265--34556508	116	2.1	116	93	1	418	39	8	7	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34559520--34559894	125	3.0	125	90	1	599	33	22	14	29	1.94
34561971--34562041	29	2.5	27	86	6	88	67	1	2	28	1.13
34562064--34562101	19	2.0	19	90	10	60	63	5	5	26	1.37
34562344--34562401	10	5.9	10	72	15	50	29	3	1	65	1.19
34570038--34570084	22	2.1	23	84	4	60	46	6	17	29	1.72
34578901--34579092	105	1.8	106	82	5	246	46	18	7	27	1.75
34579957--34580397	236	1.9	235	89	1	686	34	16	21	26	1.95
34583205--34583407	107	1.9	108	87	5	304	48	18	6	25	1.73
34585325--34585379	27	2.0	27	92	0	92	30	23	10	34	1.89
34608486--34608524	16	2.4	16	82	0	51	41	5	23	30	1.76
34608506--34608598	44	2.1	46	86	8	129	32	5	23	38	1.78
34608702--34608743	16	2.6	16	85	7	50	45	2	0	52	1.13
34608668--34608834	56	2.8	60	82	12	191	53	3	1	41	1.26
34611801--34611835	17	2.0	18	88	5	54	11	34	45	8	1.71
34612054--34612089	12	2.9	13	88	12	58	25	13	5	55	1.60
34612286--34612323	13	2.9	13	92	0	67	23	18	13	44	1.85
34616151--34616231	26	3.1	26	71	7	67	24	20	18	35	1.95
34618143--34618170	13	2.2	13	100	0	56	57	14	21	7	1.61
34619382--34619431	26	1.9	26	95	0	91	22	20	22	36	1.96
34619526--34619590	33	2.0	33	87	6	96	21	26	24	27	1.99
34623798--34623896	31	3.1	31	82	5	119	37	3	4	55	1.34
34624943--34625028	43	2.0	43	97	0	163	45	13	9	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34626295--34626343	20	2.4	20	82	3	62	22	4	6	67	1.30
34628382--34628436	28	1.9	29	82	10	69	34	7	30	27	1.84
34638470--34638517	12	3.8	12	78	10	60	29	29	18	22	1.98
34638466--34638525	26	2.3	26	94	0	111	26	30	18	25	1.98
34646182--34646229	5	9.4	5	81	4	60	75	4	2	18	1.07
34649519--34649566	20	2.4	20	92	0	78	54	14	25	6	1.63
34649519--34649566	11	4.9	9	76	18	51	54	14	25	6	1.63
34649674--34649711	17	2.2	17	95	0	67	21	28	34	15	1.94
34651414--34651458	20	2.2	20	96	0	81	48	8	8	33	1.65
34653314--34653341	2	14.0	2	100	0	56	50	0	0	50	1.00
34656343--34656416	16	4.2	16	81	18	94	24	0	37	37	1.56
34656349--34656391	22	2.0	22	100	0	86	23	0	39	37	1.55
34656397--34656487	45	2.0	45	85	2	121	27	6	28	37	1.82
34656635--34657218	121	4.8	121	97	0	1080	47	6	2	43	1.40
34656635--34657218	243	2.4	243	96	0	1082	47	6	2	43	1.40
34657171--34657239	16	4.4	16	74	20	74	40	10	0	49	1.37
34672318--34672352	17	2.1	17	94	0	61	60	5	28	5	1.43
34672277--34672393	58	2.0	58	89	0	180	43	10	29	17	1.81
34675989--34676021	16	2.1	17	88	11	52	54	0	3	42	1.15
34685071--34685145	38	2.0	38	92	5	127	53	6	12	28	1.63
34687357--34687402	8	5.8	8	78	17	51	28	0	2	69	1.00
34696042--34696075	17	2.0	17	88	0	50	50	11	20	17	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34696639--34696669	2	15.5	2	100	0	62	51	0	0	48	1.00
34696914--34697016	41	2.5	41	83	0	116	27	20	26	26	1.99
34699926--34700123	96	2.1	96	97	0	371	22	17	24	34	1.96
34701864--34701924	18	3.4	18	72	4	52	72	1	16	9	1.19
34708130--34708187	24	2.4	25	79	2	64	17	24	20	37	1.93
34708250--34708307	27	2.2	26	82	8	73	20	25	18	34	1.96
34713241--34713277	19	1.9	19	89	10	58	27	0	27	45	1.54
34717520--34717566	20	2.4	19	80	13	51	76	0	19	4	0.95
34725024--34725052	3	9.7	3	100	0	58	68	0	31	0	0.89
34725703--34725761	13	4.8	12	70	17	50	52	1	35	10	1.45
34725705--34725761	19	3.1	19	69	19	57	50	1	36	10	1.47
34726628--34726698	35	2.0	35	88	0	106	46	9	5	38	1.61
34728634--34728711	34	2.3	34	80	4	86	39	12	15	32	1.85
34743487--34743579	49	2.0	47	83	12	120	48	6	7	37	1.57
34747168--34747192	12	2.1	12	100	0	50	76	0	0	24	0.80
34747260--34747287	14	2.0	14	100	0	56	78	0	0	21	0.75
34752352--34752427	40	1.9	40	86	5	109	19	28	28	22	1.98
34754230--34754277	17	2.8	17	70	0	51	45	0	0	54	0.99
34755961--34756071	40	2.8	40	83	4	136	33	21	26	18	1.97
34755960--34756096	40	3.4	39	73	10	125	35	20	24	18	1.95
34756153--34756406	41	6.2	41	82	5	291	24	22	26	27	1.99
34756134--34756406	82	3.3	80	85	4	350	23	21	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34756132--34756404	123	2.2	121	84	4	341	23	21	26	27	1.99
34756853--34756897	21	2.1	21	83	0	54	22	2	42	33	1.66
34756973--34757048	14	5.5	14	78	9	84	21	0	46	32	1.52
34756979--34757048	7	10.1	7	77	9	63	20	0	47	32	1.50
34757111--34757145	18	1.9	18	88	0	52	17	0	42	40	1.49
34757128--34757184	21	2.7	20	81	10	60	24	0	38	36	1.56
34756942--34757178	130	1.8	128	79	7	271	27	0	31	41	1.59
34758830--34758868	4	9.8	4	100	0	78	76	0	0	23	0.78
34761375--34761416	7	6.1	7	86	5	59	35	0	19	45	1.50
34761371--34761414	20	2.1	21	91	4	72	34	0	15	50	1.45
34761566--34761593	13	2.2	13	100	0	56	32	0	17	50	1.47
34761759--34761800	7	6.1	7	83	5	59	38	0	16	45	1.48
34761755--34761798	20	2.1	21	91	4	72	36	0	13	50	1.42
34762061--34762479	25	16.9	25	74	9	306	44	20	1	32	1.62
34762061--34762458	9	47.2	9	69	17	221	44	21	1	32	1.61
34762178--34762456	34	8.5	32	72	18	118	44	22	1	31	1.60
34762043--34762458	16	24.9	16	67	17	142	44	20	1	32	1.61
34764253--34764361	43	2.5	43	84	0	137	30	16	28	24	1.97
34766168--34766263	35	2.7	35	81	0	120	14	11	34	39	1.82
34782459--34782982	44	11.9	44	85	1	665	27	20	25	25	1.99
34784439--34784465	12	2.2	12	100	0	54	37	0	0	62	0.95
34787493--34787532	20	2.0	20	85	9	55	37	12	7	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34793419--34793444	13	2.0	13	100	0	52	23	38	30	7	1.83
34796615--34796702	25	3.6	25	78	4	81	32	22	25	19	1.97
34801758--34801796	7	5.3	7	82	11	51	51	2	0	46	1.14
34801807--34801899	27	3.4	27	75	20	79	47	2	6	44	1.41
34803960--34804052	47	2.0	46	93	2	159	30	20	10	38	1.87
34810594--34810639	22	2.1	22	100	0	92	39	13	4	43	1.63
34811484--34811525	18	2.3	18	92	8	68	54	4	11	28	1.57
34811479--34811517	8	4.8	8	85	14	53	61	2	10	25	1.41
34814275--34814311	17	2.2	17	90	0	56	32	24	18	24	1.97
34814838--34814936	35	2.8	35	85	0	135	26	16	15	42	1.87

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