genome.fa.s5.2.7.7.80.10.50.1000.107.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  107  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)
32446340--32446624	43	6.5	43	80	6	308	43	30	0	24	1.59
32446718--32446886	37	4.5	37	66	14	121	43	8	5	42	1.59
32446624--32446883	114	2.3	114	97	0	493	42	8	6	41	1.63
32449650--32449838	94	2.0	94	95	0	342	31	22	14	31	1.94
32449991--32450432	126	3.5	125	88	1	611	29	22	17	30	1.97
32455340--32455426	42	2.1	42	84	4	113	28	24	27	19	1.98
32459240--32459492	136	1.9	136	82	3	321	26	23	18	30	1.98
32460140--32460198	17	3.6	17	76	17	70	35	0	6	57	1.25
32460137--32460207	32	2.2	32	97	2	135	38	0	5	56	1.23
32462305--32462389	21	4.0	21	78	6	73	14	21	18	45	1.84
32462305--32462389	42	2.0	42	84	4	109	14	21	18	45	1.84
32471308--32471338	16	1.9	16	93	0	53	41	9	12	35	1.76
32480119--32480152	15	2.3	15	90	10	52	73	0	2	23	0.97
32480783--32481067	35	8.1	35	69	6	171	24	22	19	32	1.97
32480776--32481068	71	4.1	70	82	7	333	24	22	19	33	1.97
32480776--32481032	36	7.2	36	66	10	107	24	22	19	33	1.97
32480776--32481116	142	2.4	142	83	4	427	24	21	19	34	1.96
32480776--32481103	71	4.6	70	81	6	311	24	21	19	34	1.96
32489490--32489532	19	2.3	19	88	8	61	23	9	9	58	1.58
32490212--32490255	16	2.7	16	85	3	52	50	0	9	40	1.34
32490907--32490951	23	2.0	24	86	8	67	57	4	0	37	1.19
32490910--32490960	23	2.3	22	79	3	57	52	3	0	43	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32491133--32491173	15	2.5	17	88	11	68	68	0	0	31	0.90
32505727--32505782	21	2.6	21	83	8	60	28	19	17	33	1.95
32507189--32507342	77	2.0	77	98	0	299	22	16	12	48	1.80
32514445--32514490	24	1.9	24	82	8	58	50	13	6	30	1.66
32522312--32522346	13	2.7	13	86	0	52	51	0	5	42	1.25
32528219--32528248	14	2.1	14	100	0	60	26	13	30	30	1.94
32528351--32528415	25	2.6	25	90	0	103	33	20	18	27	1.96
32536432--32536678	50	4.8	50	87	4	307	25	23	29	21	1.99
32536437--32536678	99	2.4	104	88	4	341	24	23	29	22	1.99
32538407--32538653	48	5.1	49	90	1	198	24	27	19	28	1.99
32538411--32538649	96	2.5	96	86	0	307	25	26	19	28	1.99
32540213--32540588	131	2.9	132	90	1	585	26	26	18	28	1.98
32540270--32540588	44	7.3	44	65	11	134	26	26	18	28	1.98
32540587--32540779	88	2.2	89	83	2	237	23	21	25	29	1.99
32540846--32540963	44	2.7	44	88	2	157	29	24	19	26	1.98
32540886--32541331	225	2.0	223	85	1	597	28	21	19	30	1.97
32541342--32541796	44	10.2	44	79	4	396	25	22	20	31	1.98
32541451--32541788	45	7.6	44	78	8	265	24	24	20	30	1.99
32541342--32541747	89	4.6	88	76	7	349	26	22	19	31	1.98
32541355--32541788	134	3.3	133	78	6	369	25	23	19	30	1.98
32541364--32541793	178	2.4	178	89	0	673	25	23	20	30	1.98
32542073--32542128	24	2.3	24	90	0	94	28	23	12	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32548534--32548607	29	2.6	29	89	4	107	43	18	14	22	1.87
32556545--32556581	18	2.1	18	94	0	65	21	27	24	27	1.99
32556978--32557421	167	2.7	167	93	0	746	32	13	18	35	1.90
32563512--32563583	35	2.1	35	100	0	144	26	16	16	40	1.90
32576220--32577645	557	2.5	569	81	6	1621	35	11	19	33	1.89
32579856--32579907	16	3.2	16	88	0	77	36	5	30	26	1.80
32582096--32582148	24	2.2	25	77	12	58	45	18	3	32	1.68
32583010--32583137	43	3.0	42	77	17	138	28	30	18	21	1.97
32590942--32591065	43	2.9	43	78	13	130	29	29	19	21	1.98
32594501--32594533	17	2.0	17	88	5	50	45	0	0	54	0.99
32594494--32594681	58	3.2	56	73	20	152	39	4	4	51	1.41
32594552--32594705	58	2.6	59	76	13	145	39	3	7	49	1.49
32596617--32596681	27	2.4	27	92	0	112	27	21	32	18	1.97
32596807--32596841	14	2.6	13	86	8	52	65	0	34	0	0.93
32596984--32597151	19	8.4	19	74	18	137	31	0	12	55	1.42
32597166--32597287	60	2.0	60	85	3	165	30	0	13	54	1.45
32597405--32597441	16	2.4	15	90	4	56	35	2	2	59	1.26
32604854--32604887	12	2.8	13	86	13	54	50	0	0	50	1.00
32606275--32606340	21	3.1	21	80	0	87	1	28	18	51	1.55
32606283--32606349	21	3.2	21	80	2	82	1	23	17	56	1.49
32608819--32608933	13	7.9	14	69	16	65	35	2	51	10	1.50
32608881--32608950	23	3.2	23	65	19	67	31	5	55	7	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32608819--32608951	43	3.0	43	94	2	221	35	3	51	9	1.53
32608997--32609193	30	6.5	30	94	3	342	52	0	10	37	1.35
32608997--32609193	91	2.2	91	95	1	351	52	0	10	37	1.35
32610676--32610728	21	2.5	21	90	0	79	30	37	11	20	1.88
32613595--32613630	6	6.0	6	100	0	72	16	0	0	83	0.65
32614504--32614543	3	13.3	3	100	0	80	67	0	0	32	0.91
32615092--32615131	20	2.0	20	95	0	71	32	10	12	45	1.75
32616537--32616576	3	13.7	3	94	5	73	67	32	0	0	0.91
32619611--32619944	44	7.5	44	77	4	312	28	24	16	31	1.96
32619631--32619944	89	3.5	89	84	2	337	28	24	16	30	1.96
32619615--32619934	133	2.4	133	87	1	444	28	24	15	31	1.96
32624055--32624100	19	2.4	19	85	7	58	47	10	19	21	1.80
32628380--32628422	22	2.0	22	81	9	52	72	2	13	11	1.22
32628504--32628545	22	1.9	22	100	0	84	35	9	0	54	1.33
32628616--32628679	27	2.4	27	91	0	101	25	26	32	15	1.95
32628913--32628941	3	9.7	3	100	0	58	0	0	31	68	0.89
32629802--32629836	18	1.9	18	88	0	52	37	5	40	17	1.73
32635621--32635682	22	2.9	22	78	7	74	0	27	0	72	0.85
32635625--32635755	18	7.1	18	68	19	74	0	29	0	70	0.87
32635633--32635783	37	4.1	37	82	10	184	0	30	0	69	0.89
32635657--32635789	4	32.2	4	74	19	78	0	30	0	69	0.89
32635638--32635789	39	3.9	39	79	12	179	0	31	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32637704--32637772	32	2.2	32	84	5	86	20	13	23	43	1.86
32638480--32638548	31	2.3	30	82	7	77	26	7	20	46	1.76
32639738--32639779	12	3.5	12	75	12	50	33	0	42	23	1.55
32639738--32639784	24	1.9	24	91	4	76	34	0	38	27	1.57
32640871--32640960	27	3.3	27	80	6	110	43	24	14	17	1.87
32641424--32641495	34	2.1	35	84	5	94	27	22	20	29	1.99
32642749--32642833	26	3.2	26	76	3	89	21	14	31	32	1.93
32644122--32644182	25	2.4	25	86	2	77	32	8	14	44	1.75
32644830--32645522	371	1.9	369	87	2	1014	31	19	14	34	1.92
32651445--32651511	26	2.6	26	95	0	116	23	32	22	20	1.98
32657529--32657609	25	3.2	25	80	0	90	23	28	24	23	2.00
32657899--32657929	16	1.9	16	100	0	62	22	0	19	58	1.40
32660023--32660152	55	2.4	55	89	0	197	25	30	20	23	1.98
32668104--32668192	18	4.5	19	70	18	56	62	1	1	34	1.10
32668286--32668330	16	2.7	17	89	3	65	68	2	2	26	1.12
32668715--32668753	17	2.4	16	82	4	51	25	0	0	74	0.82
32669826--32669889	29	2.1	31	86	11	89	40	4	7	46	1.53
32672955--32673157	82	2.5	82	92	0	334	49	14	6	28	1.69
32675696--32675823	39	3.0	45	78	15	144	25	49	3	21	1.64
32675736--32675823	39	2.3	39	95	0	158	27	51	2	19	1.59
32678216--32678252	9	4.0	9	89	3	56	21	2	8	67	1.29
32678278--32678316	17	2.2	18	86	9	53	28	2	2	66	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32690442--32690556	38	3.1	38	98	1	223	40	17	18	24	1.91
32695000--32696583	534	3.0	534	94	0	2767	26	22	15	34	1.95
32697013--32697070	27	2.1	27	87	0	80	20	22	15	41	1.90
32700091--32700139	22	2.2	22	88	0	71	34	14	22	28	1.93
32703041--32703108	34	2.0	34	85	5	93	27	19	26	26	1.99
32703820--32703881	26	2.4	26	91	0	97	33	11	14	40	1.82
32707740--32707766	13	2.1	13	100	0	54	14	29	0	55	1.40
32710443--32710471	12	2.3	13	94	5	51	65	6	6	20	1.40
32714021--32714070	21	2.4	21	93	0	82	32	28	24	16	1.96
32714021--32714101	21	3.8	21	79	7	74	38	24	19	17	1.93

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