genome.fa.s8.2.7.7.80.10.50.1000.90.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  90  of  190  ( 22705 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)
26496614--26496691	27	2.9	27	76	3	86	24	33	21	20	1.97
26496731--26496780	24	2.0	25	84	3	66	56	4	0	40	1.18
26500115--26500163	24	2.0	25	84	4	64	51	10	0	38	1.36
26501752--26501785	16	2.1	16	88	0	50	26	2	0	70	1.01
26503848--26503886	14	2.8	14	92	0	69	35	7	0	56	1.28
26507590--26507732	43	3.3	43	92	0	234	31	32	18	18	1.95
26512928--26512987	10	5.7	11	79	18	65	45	5	0	50	1.23
26512923--26512993	30	2.4	29	86	9	90	47	4	1	46	1.30
26512956--26512988	12	2.9	12	86	13	52	42	6	0	51	1.26
26512928--26512990	20	3.1	20	82	11	83	42	4	0	52	1.22
26514598--26514876	41	6.8	41	91	1	452	30	26	23	19	1.98
26514915--26515050	40	3.4	40	81	7	143	18	22	22	36	1.95
26515056--26515081	12	2.2	12	100	0	52	46	30	15	7	1.74
26515168--26515264	9	10.4	9	70	8	54	55	1	7	36	1.34
26515594--26515648	19	2.9	18	78	7	58	29	10	1	58	1.43
26517406--26517436	9	3.4	9	90	0	53	25	12	22	38	1.90
26517489--26517525	9	4.1	9	92	0	65	45	13	10	29	1.77
26517999--26518024	5	5.2	5	100	0	52	19	19	19	42	1.90
26518611--26518694	28	3.0	27	78	7	78	61	3	1	33	1.20
26540345--26540384	21	1.9	21	85	10	55	30	7	10	52	1.62
26547541--26547778	71	3.4	71	93	0	413	32	21	12	33	1.90
26548913--26548943	16	1.9	16	93	0	53	41	9	0	48	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26559482--26559541	18	3.3	18	72	6	59	31	3	21	43	1.69
26559630--26559694	34	1.9	34	84	6	87	16	15	26	41	1.88
26578352--26578380	13	2.1	14	93	6	51	31	0	62	6	1.22
26582861--26583000	50	2.8	50	80	0	154	26	23	28	21	1.99
26583257--26583305	20	2.5	20	78	15	57	55	6	26	12	1.60
26588406--26588510	43	2.4	44	73	10	108	37	19	20	22	1.95
26591487--26591791	133	2.3	132	84	5	391	27	22	18	31	1.97
26591487--26591792	44	6.9	44	86	3	393	27	22	18	31	1.97
26596504--26596727	109	2.1	109	99	0	439	18	27	8	45	1.79
26599947--26599986	19	2.0	20	85	4	55	55	2	0	42	1.13
26604432--26604509	39	2.0	38	82	2	93	47	21	5	25	1.71
26609273--26609315	22	2.1	20	83	12	52	37	16	13	32	1.88
26610613--26610741	47	2.7	47	85	7	181	42	17	15	24	1.88
26613745--26613822	39	2.0	39	97	0	147	42	12	16	28	1.85
26616149--26616187	20	2.0	20	94	0	69	20	28	17	33	1.96
26617467--26617566	23	4.3	23	73	14	87	39	18	16	27	1.91
26619729--26619759	9	3.4	9	90	0	53	25	12	22	38	1.90
26619812--26619848	9	4.1	9	92	0	65	45	13	10	29	1.77
26634400--26634440	20	2.0	20	86	9	57	36	0	2	60	1.10
26640507--26640551	20	2.1	22	84	8	58	73	0	6	20	1.05
26653316--26653396	36	2.2	36	84	4	101	16	35	6	41	1.73
26656090--26656137	24	2.0	24	83	0	60	52	10	10	27	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26660656--26660694	15	2.7	15	84	4	53	17	5	25	51	1.66
26664941--26665043	53	1.9	53	84	7	138	8	21	13	56	1.64
26665212--26665239	3	9.3	3	100	0	56	67	0	32	0	0.91
26669426--26669481	30	1.9	28	82	13	69	60	10	14	14	1.58
26671408--26671446	18	2.2	17	82	13	51	5	17	2	74	1.12
26675759--26675795	17	2.2	17	90	0	56	81	0	8	10	0.89
26687122--26687218	25	3.9	25	75	5	88	29	19	24	25	1.98
26691235--26691327	31	3.0	31	91	0	159	22	15	15	47	1.82
26696842--26696894	16	3.2	16	94	5	97	24	0	37	37	1.56
26696875--26696965	45	2.0	45	85	6	123	28	6	27	37	1.82
26697110--26697164	15	3.4	16	80	16	53	54	1	0	43	1.10
26697116--26697164	16	2.9	18	80	20	61	55	0	0	44	0.99
26697046--26697313	138	1.9	138	90	1	430	45	3	4	47	1.40
26700843--26700877	9	4.0	9	92	7	63	65	0	0	34	0.93
26700843--26700877	17	2.0	17	94	5	61	65	0	0	34	0.93
26705926--26705994	31	2.2	31	94	0	120	36	15	10	37	1.82
26707920--26707950	11	2.8	11	95	0	53	22	0	6	70	1.09
26724219--26724270	21	2.5	21	93	0	86	26	11	32	28	1.91
26724999--26725086	42	2.1	42	89	0	131	25	25	21	28	1.99
26724999--26725106	42	2.6	42	85	2	119	25	23	22	29	1.99
26726124--26726211	37	2.4	37	90	1	142	44	32	9	13	1.75
26734064--26734147	26	3.3	26	79	3	89	30	29	14	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26734082--26734147	25	2.6	25	82	2	87	30	28	16	24	1.97
26735142--26735171	13	2.3	13	94	0	51	30	23	3	43	1.70
26737050--26737108	28	2.1	28	96	0	109	30	28	23	16	1.97
26737322--26737512	32	6.0	32	80	1	204	40	21	17	19	1.92
26737322--26737507	64	2.9	64	89	1	257	39	21	18	20	1.92
26737319--26737507	96	2.0	96	83	0	243	40	21	17	20	1.92
26737654--26737730	24	3.2	24	81	0	82	44	20	10	24	1.83
26737792--26737957	27	6.1	27	72	16	121	21	19	17	40	1.91
26737786--26737954	80	2.1	81	83	7	211	22	18	17	40	1.91
26737840--26738193	27	13.1	27	78	9	269	23	16	18	40	1.90
26740581--26740659	34	2.3	34	80	6	88	29	21	22	26	1.99
26741110--26741195	27	3.2	27	89	0	73	17	15	27	39	1.89
26760922--26760979	9	6.4	9	85	0	62	0	13	32	53	1.40
26771429--26771531	26	4.0	26	88	3	136	40	23	21	14	1.90
26771456--26771557	52	2.0	52	84	3	134	38	23	22	15	1.93
26771707--26771929	27	8.3	27	86	1	277	20	19	19	40	1.92
26779674--26779708	17	2.1	17	89	10	54	25	37	25	11	1.90
26781414--26781446	17	1.9	17	93	0	57	0	30	0	69	0.88
26790570--26790646	36	2.2	36	81	4	95	41	0	29	28	1.56
26790817--26790894	22	3.7	21	71	10	70	25	1	15	57	1.46
26790819--26790900	41	2.0	42	95	2	148	25	1	17	56	1.48
26795909--26795953	23	2.0	23	82	8	56	35	8	0	55	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26796419--26796451	14	2.3	15	94	5	59	36	33	0	30	1.58
26796922--26797010	40	2.3	39	90	2	133	19	21	24	34	1.96
26799608--26799632	6	4.2	6	100	0	50	68	16	16	0	1.22
26810340--26810394	25	2.2	25	96	0	101	38	0	29	32	1.58
26825316--26825375	29	2.1	29	93	0	102	43	13	8	35	1.74
26827839--26827876	18	2.0	20	90	10	62	57	0	0	42	0.98
26833190--26833409	37	6.0	37	96	1	390	24	20	16	38	1.93
26833373--26833474	46	2.2	46	91	0	168	28	21	13	36	1.92
26855544--26855580	18	2.0	19	89	5	58	5	43	0	51	1.24
26863619--26863715	24	4.0	24	85	5	124	47	8	23	20	1.77
26868225--26868290	20	3.3	20	77	10	64	39	16	10	33	1.83
26868312--26868371	20	3.0	20	83	9	77	33	6	13	46	1.69
26868470--26868567	20	4.9	21	75	17	82	31	11	16	40	1.83
26868450--26868567	40	2.9	38	81	12	130	32	11	16	39	1.84
26871017--26871132	43	2.7	43	78	7	110	29	30	18	21	1.97
26873745--26874054	43	7.3	43	82	4	333	26	28	18	26	1.98
26873745--26874054	128	2.4	129	83	4	385	26	28	18	26	1.98
26873745--26874053	171	1.8	171	88	2	478	26	28	18	26	1.98
26877193--26877221	15	1.9	15	100	0	58	34	51	0	13	1.42
26877138--26877242	36	3.0	36	71	8	90	36	42	0	20	1.58
26877201--26877290	21	4.2	22	73	8	69	38	35	0	25	1.56
26877241--26877267	14	1.9	14	100	0	54	37	37	0	25	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26877913--26878109	41	4.8	40	84	5	241	31	28	19	20	1.97
26883989--26884126	50	2.7	50	83	5	172	28	25	17	28	1.97
26886949--26887083	49	2.8	49	75	2	146	25	28	16	28	1.97
26887460--26887484	2	12.5	2	100	0	50	52	0	0	48	1.00
26888018--26888059	20	2.2	20	86	4	59	40	4	16	38	1.70
26888105--26888218	20	5.7	20	71	10	72	38	7	11	42	1.70
26888773--26888808	19	1.9	19	88	5	56	55	0	0	44	0.99
26888956--26889006	16	3.1	16	77	5	57	43	0	1	54	1.11
26907179--26907208	12	2.4	13	94	5	53	33	13	0	53	1.40
26908342--26908439	40	2.5	40	96	0	178	23	29	24	22	1.99

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