genome.fa.s5.2.7.7.80.10.50.1000.103.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   207   208   

This is table  103  of  208  ( 24913 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)
31187672--31187946	137	2.0	137	97	0	514	42	14	21	20	1.88
31219533--31219561	12	2.4	12	100	0	58	34	44	0	20	1.52
31234682--31234734	24	2.2	24	93	0	88	28	15	20	35	1.93
31236154--31236179	13	2.0	13	100	0	52	46	0	0	53	1.00
31238196--31238220	8	3.1	8	100	0	50	12	0	0	88	0.53
31251191--31251233	19	2.3	18	84	11	52	62	9	13	13	1.53
31251836--31251878	18	2.3	18	88	4	59	55	2	0	41	1.12
31251893--31251940	22	2.3	21	85	7	62	27	4	8	60	1.44
31256378--31256426	24	2.0	25	88	8	73	40	14	20	24	1.89
31274278--31274323	21	2.1	22	84	4	58	67	2	23	6	1.25
31278043--31278317	119	2.3	120	83	6	344	34	14	28	22	1.93
31278254--31278318	20	3.2	20	63	16	53	27	13	35	23	1.93
31278045--31278319	40	6.9	40	82	1	266	34	13	28	23	1.93
31282051--31282080	3	10.0	3	100	0	60	66	0	0	33	0.92
31282079--31282149	3	23.7	3	100	0	142	33	0	32	33	1.58
31289896--31289944	25	2.0	25	95	0	89	28	22	20	28	1.98
31289897--31289957	25	2.4	25	88	0	86	29	22	22	24	1.99
31294134--31294183	25	2.0	25	100	0	100	48	16	0	36	1.46
31302500--31302528	15	1.9	15	100	0	58	51	6	20	20	1.70
31306798--31306826	2	14.5	2	100	0	58	48	0	51	0	1.00
31307269--31307295	14	1.9	14	100	0	54	37	7	0	55	1.28
31309644--31309682	2	19.5	2	100	0	78	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31309764--31309810	5	9.4	5	83	0	58	25	51	0	23	1.49
31310585--31310613	13	2.1	14	93	6	51	31	20	20	27	1.98
31314905--31314950	21	2.2	21	84	7	58	43	0	13	43	1.43
31315265--31315329	25	2.7	24	71	4	58	18	27	15	38	1.91
31315265--31315341	24	3.2	24	70	14	59	18	28	16	36	1.93
31315403--31315485	25	3.3	27	77	8	77	18	24	21	36	1.95
31323274--31323395	49	2.5	48	80	6	138	31	20	25	22	1.98
31323162--31323402	50	4.7	50	73	9	150	27	20	27	24	1.99
31325040--31325071	15	2.1	15	94	0	55	15	6	9	68	1.36
31329009--31329106	48	2.0	48	88	0	142	39	3	4	53	1.36
31331605--31331944	170	2.0	171	98	0	655	24	19	19	37	1.94
31341699--31341790	27	3.4	27	90	0	139	23	11	21	42	1.86
31349968--31350019	25	2.1	25	100	0	104	25	19	19	36	1.95
31350805--31350909	43	2.5	42	78	12	115	34	22	20	21	1.97
31352137--31352284	25	6.0	24	76	6	125	25	24	19	30	1.98
31352137--31352285	50	3.0	50	84	0	190	25	24	19	30	1.98
31354494--31354591	23	4.3	23	88	2	153	22	20	24	32	1.98
31356521--31356666	42	3.5	42	80	1	168	43	22	15	19	1.88
31358861--31358901	20	2.0	20	90	0	64	41	24	26	7	1.81
31364407--31364477	20	3.6	18	72	22	61	60	0	4	35	1.16
31364428--31364490	22	2.7	23	76	18	60	53	0	3	42	1.16
31365122--31365177	23	2.5	21	78	21	60	44	1	0	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31366329--31366366	18	2.1	19	90	5	60	42	15	0	42	1.47
31371853--31371904	26	2.0	26	100	0	104	23	15	30	30	1.95
31375941--31375970	14	2.1	14	100	0	60	20	6	13	60	1.55
31378925--31378979	14	3.7	14	80	7	56	20	1	1	76	0.97
31381989--31382031	6	7.2	6	79	10	52	30	6	0	62	1.21
31382948--31383073	64	2.0	64	100	0	252	26	19	12	41	1.87
31383518--31383557	19	2.1	19	90	9	64	30	10	10	50	1.69
31390518--31390548	14	2.2	14	94	0	53	16	41	29	12	1.85
31390779--31390849	11	6.5	10	87	10	88	21	29	0	49	1.50
31390779--31390849	33	2.2	33	90	10	110	21	29	0	49	1.50
31394917--31394960	18	2.4	18	85	7	54	18	27	9	45	1.79
31395201--31395260	21	2.8	20	80	9	66	33	46	15	5	1.67
31395208--31395260	21	2.5	21	87	3	70	32	47	15	5	1.68
31398517--31398933	126	3.3	126	92	0	681	26	23	19	31	1.98
31398966--31399270	96	3.2	96	80	4	321	40	18	3	37	1.68
31401445--31401531	10	8.7	10	71	12	63	21	13	0	64	1.28
31401444--31401539	32	3.1	32	76	11	128	26	12	0	61	1.31
31401455--31401501	22	2.1	22	92	7	78	27	10	0	61	1.29
31401729--31401767	13	3.2	12	86	13	53	15	2	7	74	1.15
31401775--31401807	15	2.2	15	94	0	57	24	0	12	63	1.28
31403968--31404005	3	12.7	3	100	0	76	65	0	0	34	0.93
31404450--31404497	21	2.3	21	86	13	64	29	0	2	68	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31404442--31404545	10	10.9	9	71	18	59	27	3	1	66	1.20
31408502--31408554	24	2.2	24	83	6	63	62	3	1	32	1.24
31409977--31410232	116	2.2	116	81	4	302	15	18	16	50	1.79
31417164--31417233	31	2.3	31	85	2	88	21	14	18	45	1.84
31418397--31418422	11	2.4	11	100	0	52	38	7	0	53	1.30
31418408--31418460	26	2.0	26	85	0	70	26	1	5	66	1.25
31420768--31420856	46	2.0	44	82	8	108	25	17	23	32	1.97
31425027--31425109	41	2.0	42	92	2	141	30	15	22	31	1.95
31426912--31427036	50	2.5	49	76	11	121	38	12	12	36	1.81
31426926--31427021	50	1.9	51	82	6	124	39	12	12	35	1.81
31442536--31442599	24	2.7	24	100	0	128	35	4	9	50	1.56
31446121--31446279	53	3.0	53	87	0	219	27	25	13	34	1.93
31448010--31448128	41	2.9	41	77	5	132	32	27	21	17	1.96
31448106--31448141	16	2.2	16	100	0	72	33	25	25	16	1.96
31448018--31448225	97	2.1	98	83	2	267	34	27	20	17	1.95
31448122--31448284	41	4.0	41	88	2	222	39	29	14	16	1.88
31448736--31448997	41	6.4	41	82	4	167	37	27	16	17	1.92
31448737--31449032	82	3.6	81	82	4	301	37	27	16	18	1.92
31448805--31449032	41	5.6	41	86	3	289	38	27	16	17	1.92
31458361--31458387	5	5.4	5	100	0	54	62	0	0	37	0.95
31461238--31461334	3	32.3	3	100	0	194	0	34	0	65	0.93
31461435--31461494	3	20.0	3	100	0	120	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31462389--31462430	22	2.0	22	86	13	61	33	9	0	57	1.31
31462389--31462430	21	2.0	21	86	13	59	33	9	0	57	1.31
31463034--31463276	119	2.0	119	92	1	398	22	21	30	24	1.99
31463206--31463392	55	3.4	54	81	2	185	19	18	30	31	1.96
31472248--31472298	21	2.4	22	83	6	61	7	21	1	68	1.25
31498969--31498999	16	1.9	16	93	0	53	67	16	0	16	1.23
31499152--31499242	27	3.4	27	73	11	105	38	3	1	57	1.23
31499136--31499243	54	2.0	54	100	0	216	40	3	1	53	1.29
31500817--31500880	26	2.5	26	80	14	78	34	0	0	65	0.93
31500849--31500908	18	3.3	19	79	6	70	28	1	1	68	1.09
31500816--31500906	8	10.4	9	70	20	61	31	1	1	65	1.06
31500816--31500910	17	5.4	16	72	17	64	33	1	1	64	1.08
31500914--31500956	21	2.0	21	82	8	52	30	4	2	62	1.28
31511040--31511396	40	8.9	40	86	3	468	42	26	15	15	1.86
31511954--31511998	20	2.2	20	84	0	54	24	15	15	44	1.85
31514689--31514713	12	2.1	12	100	0	50	40	16	8	36	1.77
31520813--31520888	20	3.8	20	73	0	71	34	19	35	10	1.86
31526895--31527090	102	1.9	102	92	2	331	30	10	25	33	1.90
31528379--31528749	104	3.6	104	93	1	595	18	19	30	30	1.96
31546093--31546144	3	17.3	3	95	0	95	65	1	0	32	1.04
31551276--31551370	49	2.0	49	85	6	131	25	14	20	40	1.90
31553313--31553378	27	2.4	27	82	0	87	30	19	18	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31555519--31555572	3	17.7	3	80	3	63	37	5	0	57	1.22
31555678--31555703	3	8.7	3	100	0	52	69	30	0	0	0.89
31555905--31556181	144	1.9	145	88	4	427	43	4	8	42	1.56
31556169--31556220	21	2.6	20	71	17	54	42	3	13	40	1.62
31558243--31558281	20	1.9	21	89	5	62	28	2	10	58	1.44
31566146--31566212	20	3.3	20	74	0	80	37	13	26	22	1.91
31571697--31571763	20	3.3	20	72	0	62	37	13	26	22	1.91
31578587--31578623	18	2.1	18	90	5	58	5	43	0	51	1.24
31578765--31578801	17	2.2	17	95	0	65	0	43	0	56	0.99
31578992--31579055	3	20.7	3	74	15	51	25	4	0	70	1.06

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   207   208