genome.fa.s2.2.7.7.80.10.50.1000.91.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  91  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)
26396356--26396844	27	18.1	26	78	11	436	40	18	17	23	1.91
26396356--26396872	54	9.6	54	82	7	525	40	18	17	23	1.91
26396356--26396858	81	6.2	80	84	5	525	40	18	17	23	1.91
26398238--26398504	104	2.6	104	88	4	403	30	29	19	19	1.97
26398833--26398896	30	2.2	29	81	10	76	29	28	6	35	1.82
26398840--26398896	30	1.9	30	85	3	80	29	24	7	38	1.82
26399777--26399850	26	2.8	26	87	0	103	16	20	21	41	1.90
26399782--26399859	26	3.0	26	81	7	95	17	19	21	41	1.91
26402769--26403260	45	10.8	46	77	5	299	44	16	18	20	1.87
26402819--26403260	91	4.9	90	80	5	245	43	16	18	20	1.88
26402956--26403209	46	5.6	46	79	6	203	47	16	17	18	1.83
26402957--26403257	91	3.3	90	89	3	401	46	16	18	18	1.84
26402956--26403295	45	7.5	46	82	3	314	46	16	17	18	1.84
26403002--26403302	136	2.2	137	85	1	381	46	16	18	18	1.84
26417408--26417468	29	2.1	29	100	0	122	39	22	6	31	1.80
26422877--26422981	42	2.5	42	84	3	122	20	36	20	22	1.95
26427421--26427457	8	5.0	8	81	18	53	75	0	0	24	0.80
26427423--26427453	13	2.4	13	100	0	62	77	0	0	22	0.77
26427399--26427457	21	2.9	21	84	2	75	71	0	1	27	0.96
26429112--26429212	45	2.2	45	83	0	130	25	14	23	35	1.94
26433955--26434059	45	2.3	45	86	0	156	22	16	25	35	1.95
26438555--26438665	53	2.1	53	98	0	213	26	14	14	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26449749--26449794	14	3.3	14	81	6	58	71	0	0	28	0.86
26450888--26450919	12	2.7	12	95	0	55	6	18	43	31	1.75
26460104--26460157	13	4.1	13	78	4	54	68	3	7	20	1.30
26462652--26462680	13	2.2	13	100	0	58	41	6	20	31	1.79
26462665--26462705	21	2.0	21	100	0	82	39	12	19	29	1.88
26462867--26462911	19	2.4	18	85	14	56	51	0	4	44	1.21
26464486--26464510	12	2.1	12	100	0	50	24	44	0	32	1.54
26466806--26467188	27	14.2	26	80	6	363	40	21	16	20	1.91
26466821--26467188	81	4.6	80	81	6	427	40	21	17	20	1.91
26466813--26467188	108	3.5	107	84	4	452	40	21	17	20	1.91
26470644--26470701	28	2.1	28	100	0	116	31	17	24	27	1.97
26472192--26472265	21	3.8	20	68	22	50	33	4	6	55	1.45
26493296--26493349	25	2.1	26	83	10	67	33	3	1	61	1.25
26494978--26495075	50	2.0	50	85	0	133	26	22	30	20	1.98
26495034--26495160	49	2.6	50	76	5	125	31	19	24	24	1.98
26495365--26495413	20	2.5	20	78	15	57	59	6	20	14	1.56
26499365--26499406	21	2.0	21	86	9	59	40	2	0	57	1.12
26502550--26502719	27	6.3	27	76	10	134	34	12	26	26	1.92
26502559--26502711	81	1.9	80	89	1	234	35	10	26	27	1.89
26504562--26504604	18	2.4	18	80	0	50	16	27	4	51	1.64
26507092--26507124	2	17.0	2	87	6	50	45	0	3	51	1.16
26511675--26511760	41	2.1	42	84	6	113	32	2	15	50	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26515061--26515099	17	2.3	17	90	0	60	69	2	2	25	1.14
26515997--26516051	27	2.0	27	96	0	101	30	16	27	25	1.96
26517491--26517539	20	2.3	22	79	6	57	34	10	16	38	1.82
26517985--26518056	33	2.2	33	87	2	99	31	1	6	59	1.32
26519352--26519403	27	1.9	27	84	7	70	30	30	13	25	1.94
26525729--26525865	55	2.5	54	76	3	141	27	27	23	22	2.00
26533764--26533795	6	5.3	6	100	0	64	15	0	0	84	0.63
26536520--26536629	54	2.0	54	87	0	157	54	8	10	26	1.63
26537476--26537506	11	2.8	11	90	0	53	32	0	0	67	0.91
26537684--26537720	14	2.6	14	91	0	56	64	10	5	18	1.43
26538946--26538999	20	2.8	20	82	2	56	11	7	7	74	1.23
26538946--26539004	31	1.9	30	89	3	91	11	6	6	74	1.21
26542968--26543016	21	2.3	21	96	0	89	38	2	12	46	1.53
26548656--26548693	20	1.9	20	89	10	60	50	10	21	18	1.76
26552044--26552079	18	1.9	19	88	5	56	25	5	19	50	1.69
26561038--26561237	50	3.9	50	80	7	206	27	20	28	23	1.99
26565936--26565968	16	2.0	17	94	5	59	54	0	15	30	1.41
26577351--26577384	16	2.1	16	100	0	68	44	11	0	44	1.40
26588430--26588459	4	7.5	4	100	0	60	76	0	0	23	0.78
26590504--26590547	18	2.5	17	78	10	52	70	6	2	20	1.21
26592716--26592749	15	2.3	15	94	0	59	64	14	11	8	1.49
26595823--26595964	18	7.6	19	71	21	86	69	0	30	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26595847--26595975	10	12.4	10	67	18	59	71	0	28	0	0.86
26595820--26595972	38	4.0	38	79	14	140	69	0	30	0	0.88
26595809--26595964	62	2.5	62	82	11	169	67	0	32	0	0.90
26595844--26595964	15	7.5	16	72	20	92	69	0	30	0	0.89
26595844--26595969	48	2.6	49	81	9	145	69	0	30	0	0.88
26595820--26595904	4	20.8	4	73	17	68	69	0	30	0	0.89
26599368--26599402	3	11.7	3	100	0	70	68	31	0	0	0.90
26599471--26599509	20	2.0	21	85	10	55	66	10	0	23	1.22
26599533--26599572	11	3.7	11	86	6	64	2	27	0	70	1.01
26599533--26599573	10	3.9	11	87	9	50	2	29	0	68	1.03
26599655--26599728	27	2.7	27	81	4	87	17	29	27	25	1.97
26599791--26599858	27	2.6	27	86	4	95	47	0	7	45	1.31
26618364--26618403	17	2.3	18	83	12	57	40	10	0	50	1.36
26619773--26620010	50	4.7	50	80	3	217	28	21	27	23	1.99
26622379--26622410	16	2.1	16	94	5	57	59	0	0	40	0.97
26622371--26622424	24	2.1	26	86	10	76	57	0	0	42	0.98
26622382--26622440	28	2.1	28	84	6	75	57	0	0	42	0.98
26622940--26623139	108	1.9	106	91	2	328	34	19	19	28	1.95
26624452--26624481	12	2.6	12	94	5	53	56	0	6	36	1.26
26625055--26625099	23	1.9	24	81	4	56	17	13	6	62	1.52
26625843--26625887	22	2.0	22	83	8	56	77	8	13	0	0.98
26626365--26626448	21	3.9	22	80	9	102	17	21	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26629921--26630005	22	4.0	21	67	18	59	67	10	10	11	1.44
26632855--26632904	20	2.5	20	86	3	64	52	0	4	44	1.20
26633338--26633372	15	2.2	16	90	5	54	51	0	0	48	1.00
26641841--26641945	53	2.0	53	98	0	201	38	24	22	14	1.92
26642610--26642639	15	2.1	14	93	6	51	50	16	0	33	1.46
26642609--26642646	11	3.6	11	82	13	53	47	15	0	36	1.46
26643339--26643374	18	2.0	18	94	0	63	30	25	5	38	1.78
26643340--26643381	18	2.3	18	87	0	57	30	23	2	42	1.67
26643738--26643862	62	2.0	60	84	6	162	37	5	9	47	1.60
26646876--26647375	126	4.0	125	89	0	712	28	16	16	39	1.90
26646876--26647376	251	2.0	252	88	1	745	28	16	16	38	1.90
26647481--26647606	34	3.7	33	81	7	128	46	13	0	39	1.49
26661746--26661984	51	4.7	51	79	4	252	26	17	25	30	1.97
26661746--26661985	101	2.4	101	85	4	331	26	17	25	30	1.97
26661746--26662021	101	2.7	100	79	9	308	26	16	26	30	1.96
26664570--26664622	25	2.2	24	82	3	61	16	24	22	35	1.95
26665479--26665562	26	3.3	26	63	9	73	38	13	20	28	1.90
26665474--26665575	51	2.0	51	100	0	204	35	11	21	31	1.90
26669316--26669389	7	10.6	7	83	0	76	17	0	29	52	1.45
26669316--26669382	28	2.4	28	87	0	89	16	0	31	52	1.44
26669316--26669414	7	14.0	7	78	6	56	19	0	34	46	1.50
26669544--26669585	14	2.9	14	77	19	50	28	0	28	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26669577--26669653	14	5.4	14	73	3	64	19	0	40	40	1.52
26669577--26669649	28	2.6	28	82	6	76	19	0	42	38	1.51
26669584--26669653	21	3.3	21	80	9	70	20	0	41	38	1.52
26670052--26670100	19	2.5	19	90	3	71	69	6	8	16	1.33
26670177--26670255	42	1.9	41	84	2	104	36	16	21	25	1.94
26673594--26673727	43	3.1	44	84	4	157	27	13	23	35	1.92
26673978--26674040	32	2.0	32	83	0	81	41	6	9	42	1.63
26674280--26674316	17	2.3	17	86	9	51	43	0	2	54	1.14
26681291--26681372	29	2.8	29	83	5	94	39	9	23	28	1.86
26681319--26681495	29	6.2	29	75	12	116	38	14	22	23	1.91

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