genome.fa.s7.2.7.7.80.10.50.1000.127.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  127  of  204  ( 24458 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)
38807197--38807250	18	3.0	17	81	5	63	40	22	12	24	1.89
38808223--38808282	3	20.0	3	100	0	120	66	0	0	33	0.92
38809727--38809882	53	3.1	53	65	23	136	29	4	20	45	1.71
38811568--38811594	4	6.8	4	100	0	54	0	22	0	77	0.76
38815265--38815658	23	16.8	23	80	4	439	39	19	12	27	1.88
38815265--38815658	116	3.4	114	83	4	493	39	19	12	27	1.88
38824026--38824436	23	17.6	23	84	3	518	41	20	11	26	1.86
38833321--38833384	9	7.1	9	76	13	51	56	1	0	42	1.09
38833387--38833443	29	1.9	29	86	10	80	61	1	1	35	1.17
38833385--38833443	25	2.5	24	81	10	59	61	1	1	35	1.16
38836153--38836193	16	2.6	16	88	0	64	29	29	17	24	1.97
38836357--38836504	76	1.9	76	94	0	260	33	20	9	37	1.85
38836438--38836557	58	2.1	58	95	0	213	33	18	10	37	1.86
38836541--38836616	40	2.0	39	89	7	120	30	19	10	39	1.86
38836551--38836646	18	5.2	18	77	10	95	30	19	11	38	1.87
38836770--38836820	25	2.0	25	88	0	75	31	5	23	39	1.79
38838955--38838997	21	2.0	21	100	0	86	44	13	23	18	1.86
38845319--38845350	15	2.1	15	100	0	64	62	12	6	18	1.50
38848654--38848696	21	2.0	21	100	0	86	23	13	4	58	1.55
38856431--38856486	22	2.4	25	80	11	66	7	19	0	73	1.06
38857716--38857769	19	2.8	19	91	0	90	38	11	14	35	1.82
38857716--38857792	19	3.7	22	84	6	67	38	9	15	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38858632--38858724	23	4.0	23	73	6	80	33	5	3	58	1.37
38858631--38858882	24	10.8	24	68	15	118	34	6	4	54	1.46
38858931--38858975	23	2.0	23	86	0	63	31	8	4	55	1.51
38862373--38862412	17	2.4	17	100	0	80	45	12	5	37	1.64
38872044--38872123	16	4.9	17	72	7	60	71	1	21	6	1.15
38872047--38872127	42	1.9	42	82	5	101	69	1	23	6	1.19
38876105--38876153	24	2.0	24	88	0	71	36	24	18	20	1.94
38877974--38878055	40	2.0	40	97	0	155	34	12	21	31	1.91
38903978--38904006	12	2.3	13	94	5	51	65	6	6	20	1.40
38927067--38927123	21	2.7	21	89	5	80	28	22	19	29	1.98
38935165--38935435	131	2.1	130	90	2	418	25	24	19	29	1.99
38935128--38935435	44	7.2	44	71	6	150	25	24	20	29	1.99
38935475--38936018	85	6.3	86	77	9	448	27	23	20	29	1.99
38935418--38935976	259	2.2	259	95	0	1010	27	23	20	29	1.98
38935426--38936020	44	13.8	44	71	8	305	27	23	20	29	1.99
38936372--38936808	44	10.0	44	71	13	246	26	21	20	30	1.98
38936511--38936716	41	4.8	41	73	9	135	29	23	20	27	1.99
38936372--38936808	131	3.3	128	82	6	348	26	21	20	30	1.98
38938022--38938071	13	3.8	12	82	10	55	16	14	0	70	1.18
38938019--38938072	7	8.0	7	83	8	67	16	14	0	68	1.21
38938019--38938071	20	2.7	20	91	2	90	16	15	0	67	1.23
38939006--38939034	6	4.8	6	100	0	58	17	0	13	68	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38941017--38941059	20	2.1	20	82	4	50	16	30	4	48	1.66
38941764--38941818	26	2.1	26	96	0	101	50	14	21	12	1.76
38960062--38960157	41	2.3	42	87	3	142	34	10	15	39	1.82
38963666--38963701	17	2.0	17	89	10	54	50	19	2	27	1.62
38964732--38964773	21	2.1	19	83	16	50	66	9	0	23	1.21
38965222--38965291	34	2.0	35	97	2	133	58	0	2	38	1.13
38965778--38966155	125	3.0	125	90	0	578	28	14	23	33	1.94
38969189--38969525	37	9.1	37	96	0	584	46	1	11	40	1.51
38969524--38969757	29	7.8	30	86	7	282	25	0	29	44	1.57
38969570--38969757	29	6.4	29	91	1	313	25	0	29	44	1.58
38970259--38970299	18	2.3	18	86	0	64	41	4	31	21	1.74
38972131--38972295	73	2.3	73	91	2	260	47	1	25	26	1.60
38972167--38972290	22	5.3	22	69	16	79	45	0	25	27	1.59
38975135--38975179	18	2.5	18	100	0	90	77	11	6	4	1.09
38976685--38976709	13	1.9	13	100	0	50	72	4	0	24	1.02
38976821--38976873	18	2.9	17	76	15	52	56	0	0	43	0.99
38976864--38976933	29	2.4	29	86	6	90	64	1	4	30	1.21
38976922--38976971	19	2.5	20	80	3	57	68	0	4	28	1.08
38976843--38976955	48	2.4	46	79	15	115	61	0	3	33	1.19
38977099--38977245	9	16.7	9	70	17	78	30	4	0	64	1.17
38977100--38977153	10	5.6	10	78	14	60	27	1	1	68	1.10
38977121--38977191	8	8.6	8	74	21	58	28	2	0	69	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38977351--38977570	84	2.6	86	80	8	254	32	9	17	40	1.81
38978712--38978755	18	2.4	19	81	14	56	47	4	2	45	1.35
38979173--38979230	27	2.3	24	85	8	71	60	1	3	34	1.24
38980465--38980504	19	2.0	20	95	4	73	57	0	12	30	1.36
38982482--38982530	24	2.0	24	100	0	98	36	20	8	34	1.82
38989606--38989718	30	3.8	29	82	5	145	28	12	20	38	1.89
38989606--38989718	60	1.9	60	88	0	172	28	12	20	38	1.89
38990502--38990604	41	2.5	41	90	0	161	21	18	25	34	1.96
38990714--38990754	21	2.0	20	85	4	55	19	0	41	39	1.52
38990746--38990794	7	6.4	7	78	17	53	18	0	46	34	1.49
38990707--38990794	14	5.9	15	75	10	65	19	0	44	36	1.51
38990743--38990793	23	2.2	24	92	3	86	15	0	49	35	1.45
38991057--38991100	15	3.1	14	87	9	54	27	2	36	34	1.70
38995156--38995193	15	2.4	17	86	8	53	28	0	2	68	1.03
38996523--38996772	43	5.8	43	84	5	299	24	18	30	27	1.98
38997467--38997523	27	2.1	27	80	6	62	22	5	1	70	1.17
38998075--38998130	23	2.4	23	85	5	60	69	5	0	25	1.09
38998101--38998139	20	2.0	19	85	5	51	66	5	0	28	1.12
38998558--38998584	14	1.9	14	100	0	54	44	0	0	55	0.99
39000894--39000937	22	2.0	22	90	0	70	20	25	15	38	1.92
39001966--39002097	22	5.9	22	73	15	90	46	21	9	22	1.80
39001947--39002077	69	1.9	69	90	3	210	47	20	7	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39001995--39002146	47	3.3	47	76	5	184	44	20	11	24	1.84
39002037--39002110	22	3.4	22	90	0	112	39	24	13	22	1.90
39001972--39002146	91	1.9	91	89	0	269	44	21	10	24	1.83
39002140--39002320	22	8.1	22	78	6	157	44	23	9	22	1.81
39001968--39002188	91	2.4	91	81	4	241	45	22	9	22	1.81
39002037--39002270	124	1.9	124	92	0	396	44	22	9	22	1.82
39002127--39002223	11	8.8	11	74	0	86	46	25	5	22	1.72
39002151--39002234	11	7.6	11	72	5	71	44	26	8	21	1.80
39004157--39004186	15	2.0	15	100	0	60	53	20	0	26	1.46
39009713--39009798	11	7.9	10	69	15	55	46	22	5	25	1.74
39009714--39009920	22	9.3	22	79	5	191	44	22	8	23	1.80
39009714--39009920	44	4.6	44	78	3	216	44	22	8	23	1.80
39009726--39009809	11	7.6	11	73	5	71	44	23	8	23	1.81
39009688--39009920	113	2.1	113	88	1	351	45	21	9	24	1.81
39011855--39011902	12	4.1	12	76	15	55	25	16	20	37	1.93
39011858--39011902	23	2.0	23	82	8	56	26	17	20	35	1.95
39013325--39013455	50	2.7	50	87	2	176	27	19	24	29	1.98
39015628--39015653	5	5.2	5	100	0	52	42	19	19	19	1.90
39015743--39015768	5	5.2	5	100	0	52	38	19	19	23	1.93
39015717--39015768	26	2.0	26	81	7	61	34	15	26	23	1.94
39016696--39016732	9	4.1	9	92	0	65	29	10	13	45	1.77
39016785--39016815	9	3.4	9	90	0	53	38	22	12	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39018944--39019136	51	3.8	51	78	6	194	24	15	26	33	1.95
39018944--39019145	102	2.0	102	85	3	273	24	15	26	33	1.95
39025041--39025081	17	2.3	18	87	4	57	46	19	2	31	1.63
39031474--39031756	149	2.0	135	87	9	395	58	2	21	16	1.51
39033592--39033697	39	2.6	41	85	4	126	24	28	27	19	1.99
39035373--39035468	47	2.0	47	97	0	183	41	5	6	46	1.51
39035711--39035759	24	2.0	24	100	0	98	16	8	12	63	1.51
39036066--39036108	21	2.0	21	86	8	61	34	0	6	58	1.25
39036091--39036224	57	2.3	56	83	7	153	45	0	3	50	1.25
39036407--39036461	16	3.4	16	80	5	58	32	20	5	41	1.75

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