genome.fa.s9.2.7.7.80.10.50.1000.132.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  132  of  226  ( 27023 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)
44181790--44181839	26	1.9	26	84	8	66	30	10	22	38	1.86
44189875--44189926	22	2.4	22	80	0	59	44	19	19	17	1.87
44189931--44190117	32	5.8	31	80	6	169	37	18	20	23	1.94
44189918--44190117	64	3.1	63	77	5	206	38	18	20	23	1.94
44190115--44190169	26	2.3	23	71	17	56	38	27	18	16	1.92
44190123--44190176	26	2.1	26	92	0	90	38	25	18	16	1.92
44190291--44190377	24	3.6	24	87	0	111	43	21	9	25	1.82
44190398--44190623	27	8.4	27	88	1	229	22	21	19	37	1.95
44190398--44190636	81	3.0	81	81	2	264	21	20	20	37	1.95
44190533--44190646	27	4.2	27	87	6	133	19	16	18	45	1.85
44190533--44190646	54	2.1	54	85	6	151	19	16	18	45	1.85
44199029--44199275	50	4.8	51	75	10	184	29	20	26	24	1.99
44208775--44208799	12	2.1	12	100	0	50	24	0	0	76	0.80
44210731--44210758	12	2.3	12	100	0	56	28	35	10	25	1.89
44212524--44212622	42	2.3	44	76	13	109	40	16	14	29	1.87
44219257--44219362	42	2.5	43	79	13	139	41	19	12	26	1.87
44226033--44226146	42	2.7	43	75	8	126	27	14	17	40	1.89
44235810--44235853	23	1.9	22	82	17	54	36	25	0	38	1.56
44235997--44236182	51	3.7	49	75	5	165	31	25	17	25	1.97
44238133--44238166	1	34.0	1	93	0	59	97	0	2	0	0.19
44240482--44240514	17	1.9	17	100	0	66	42	24	6	27	1.78
44242400--44242471	29	2.4	29	81	4	81	25	12	15	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44242995--44243071	29	2.6	29	79	4	82	49	15	12	22	1.78
44246142--44246247	35	3.0	35	81	0	131	28	17	29	24	1.98
44248472--44248496	9	2.8	9	100	0	50	24	0	8	68	1.16
44248983--44249069	26	3.4	26	78	13	74	72	3	20	3	1.14
44249717--44249754	14	2.7	14	100	0	76	50	0	13	36	1.42
44255877--44255950	27	2.7	27	83	4	78	36	22	12	28	1.90
44259174--44259213	21	1.9	21	84	0	53	52	2	7	37	1.43
44260287--44260434	43	3.5	43	80	7	176	29	18	25	26	1.98
44272474--44272510	18	2.1	18	94	0	65	29	27	16	27	1.97
44275175--44275480	27	11.4	27	89	3	449	35	18	21	23	1.96
44275175--44275480	107	2.9	108	89	2	449	35	18	21	23	1.96
44277540--44277727	45	4.2	45	82	4	202	21	14	27	36	1.92
44282020--44282248	81	2.8	79	84	3	287	44	23	14	17	1.86
44282010--44282264	81	3.2	78	82	4	285	44	21	16	18	1.87
44282010--44282275	27	9.9	27	86	3	259	43	21	15	19	1.88
44282657--44282723	29	2.2	31	86	7	93	28	16	14	40	1.88
44294809--44295095	42	6.8	40	82	9	315	35	20	19	25	1.96
44294809--44295095	127	2.3	127	86	7	388	35	20	19	25	1.96
44294810--44295102	85	3.5	84	84	6	362	34	20	19	25	1.96
44295563--44295618	21	2.7	21	91	0	85	5	39	19	35	1.75
44301042--44301297	9	29.8	9	72	16	204	31	1	20	46	1.58
44301031--44301293	25	10.3	25	78	9	150	31	1	19	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44301046--44301255	34	6.6	32	73	17	149	32	0	20	46	1.57
44301405--44301454	16	3.4	16	73	21	63	34	2	18	46	1.60
44301403--44301590	28	6.4	28	78	12	121	39	1	13	45	1.54
44301467--44301697	29	7.9	28	75	14	132	41	0	13	44	1.48
44301416--44301695	120	2.3	119	96	0	515	40	1	14	44	1.52
44301416--44301733	57	5.4	57	76	10	250	40	0	13	44	1.51
44301709--44301797	28	2.9	29	86	11	108	35	1	15	47	1.53
44301966--44302176	13	16.0	13	71	8	140	44	4	10	40	1.58
44301957--44302159	53	3.8	53	95	0	361	44	3	10	40	1.58
44302072--44302213	66	2.2	66	83	1	178	43	3	11	40	1.59
44303993--44304034	19	2.2	19	86	0	57	19	2	50	28	1.60
44305465--44305505	7	5.9	7	88	0	64	43	51	0	4	1.23
44305861--44305900	14	2.9	14	80	0	53	40	45	0	15	1.46
44305879--44306035	81	1.9	81	84	5	210	43	27	1	28	1.63
44306476--44307130	114	5.8	114	78	5	562	27	23	22	25	2.00
44306616--44307105	227	2.1	231	83	4	627	26	23	23	27	2.00
44309679--44309837	27	5.9	27	85	0	210	35	21	20	22	1.96
44309678--44309837	81	2.0	81	87	2	232	35	21	20	22	1.96
44310007--44310087	26	3.1	26	85	3	110	23	19	18	38	1.93
44310199--44310282	27	3.1	28	84	5	109	22	17	23	35	1.95
44310550--44310591	17	2.5	17	100	0	84	40	11	9	38	1.75
44315683--44315721	3	13.0	3	100	0	78	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44316862--44316894	17	1.9	17	88	11	50	45	3	18	33	1.65
44317494--44317993	252	2.0	251	90	1	788	27	8	23	40	1.83
44337380--44337548	27	6.3	27	85	0	230	43	23	14	17	1.86
44337404--44337575	54	3.2	52	77	14	161	41	22	16	19	1.90
44337696--44337802	26	4.1	26	88	0	142	22	22	22	32	1.98
44344882--44344941	20	2.9	19	80	16	59	68	1	18	11	1.28
44352731--44352763	3	11.0	3	100	0	66	33	0	0	66	0.92
44352813--44352854	20	2.2	20	86	4	59	57	0	0	42	0.99
44353326--44353376	18	2.9	17	77	14	50	56	0	3	39	1.18
44353747--44353811	30	2.2	30	97	0	121	23	3	15	58	1.51
44353931--44353961	11	2.8	11	90	0	53	67	0	0	32	0.91
44354190--44354222	12	2.5	13	90	9	50	66	3	6	24	1.28
44367354--44367567	107	2.0	107	99	0	419	26	15	14	43	1.85
44373825--44373892	20	3.4	19	74	11	57	8	22	1	67	1.26
44377029--44377064	14	2.6	14	91	8	56	0	22	0	77	0.76
44379659--44379703	20	2.2	20	84	11	56	51	0	8	40	1.33
44381856--44381953	50	2.0	50	97	0	187	33	28	2	35	1.69
44384207--44384252	22	2.1	22	95	0	83	21	19	34	23	1.96
44395673--44395724	26	2.0	26	88	0	77	34	7	17	40	1.78
44402291--44402358	34	2.0	35	82	5	86	29	22	26	22	1.99
44408005--44408039	16	2.1	17	89	5	54	42	11	0	45	1.40
44409184--44409267	20	4.2	20	79	8	100	7	28	25	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44409188--44409274	39	2.2	39	85	4	113	10	28	22	37	1.87
44413321--44413362	20	2.1	20	86	0	57	47	0	7	45	1.30
44416377--44416412	15	2.3	16	90	4	56	41	2	0	55	1.14
44417007--44417054	3	16.0	3	100	0	96	66	0	0	33	0.92
44417216--44417260	23	2.0	23	86	0	63	48	2	2	46	1.26
44421826--44421866	21	2.0	21	95	0	73	31	9	19	39	1.84
44439526--44439625	52	1.9	51	91	2	164	48	6	5	41	1.50
44446421--44446478	20	2.7	20	79	12	62	41	1	0	56	1.09
44450672--44450723	21	2.5	21	87	9	72	28	13	17	40	1.87
44453245--44453294	21	2.4	21	86	0	64	18	16	40	26	1.90
44454675--44455149	248	1.9	249	86	1	684	26	15	23	33	1.95
44455573--44455715	43	3.3	43	90	1	225	30	26	18	25	1.98
44455571--44455755	85	2.2	85	80	1	219	32	27	16	23	1.96
44461951--44462133	7	25.7	7	73	13	72	45	33	0	20	1.55
44461951--44462133	21	8.6	21	71	14	106	45	33	0	20	1.55
44462108--44462138	14	2.2	14	94	0	53	51	29	0	19	1.47
44462201--44462243	22	2.0	22	86	4	61	39	23	18	18	1.92
44462263--44462374	40	2.8	40	78	6	111	20	20	22	36	1.95
44462380--44462405	12	2.2	12	100	0	52	46	23	15	15	1.83
44467713--44467759	18	2.6	18	76	6	51	42	2	17	38	1.61
44468736--44468840	20	5.3	20	67	15	65	17	27	17	38	1.92
44468723--44468861	40	3.5	40	82	2	154	16	26	17	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44478054--44478087	16	2.1	16	88	0	50	17	41	14	26	1.88
44478078--44478213	50	2.7	50	88	0	200	20	30	22	27	1.98
44485721--44485962	50	4.9	50	82	3	258	28	21	27	21	1.99
44492618--44492856	50	4.8	48	72	10	178	28	19	26	25	1.99
44495675--44495717	9	4.6	9	86	11	59	58	2	0	39	1.11
44495681--44495722	20	2.1	20	95	0	75	57	0	0	42	0.99
44496097--44496187	28	3.2	29	80	13	93	65	2	1	30	1.11
44496101--44496188	9	9.0	10	71	16	60	63	2	1	32	1.14
44496098--44496185	19	4.7	18	72	14	63	65	2	1	30	1.12
44496120--44496188	20	3.5	20	73	11	63	62	1	1	34	1.13

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226