genome.fa.s8.2.7.7.80.10.50.1000.147.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  147  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)
43279824--43280014	71	2.7	71	80	3	213	29	18	20	31	1.96
43280290--43280328	2	19.5	2	100	0	78	51	0	0	48	1.00
43282584--43282643	23	2.6	23	94	0	102	30	21	21	26	1.99
43282885--43282923	18	2.2	17	86	13	53	46	20	0	33	1.51
43284576--43284715	42	3.3	42	86	0	190	28	16	25	30	1.97
43286604--43286653	24	2.0	25	85	11	68	76	12	4	8	1.15
43292508--43292602	31	3.1	31	98	0	181	45	13	9	31	1.76
43295520--43295564	23	2.0	23	81	0	54	28	51	8	11	1.68
43298316--43298378	26	2.5	25	76	19	60	25	0	4	69	1.07
43303815--43303920	38	2.8	38	85	2	142	37	4	20	36	1.74
43304276--43304359	38	2.2	38	93	6	152	35	2	22	39	1.67
43304468--43304526	28	2.1	28	96	0	109	27	23	20	28	1.99
43309413--43309839	114	3.8	112	75	8	325	33	21	18	25	1.97
43309413--43309837	219	1.9	221	80	6	495	33	21	18	25	1.97
43314309--43314350	14	3.2	13	83	9	59	21	16	7	54	1.65
43314282--43314380	12	8.2	12	70	16	71	27	16	11	45	1.81
43314284--43314380	23	4.0	24	75	15	76	25	16	11	46	1.80
43315275--43315308	7	4.9	7	88	0	50	32	26	23	17	1.97
43318825--43318872	24	2.0	25	91	4	80	22	0	25	52	1.48
43318830--43318885	25	2.3	24	87	3	76	26	1	19	51	1.57
43332339--43332394	3	19.3	3	81	7	71	33	5	0	60	1.19
43332341--43332412	12	5.3	13	76	17	58	33	5	0	61	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43332408--43332460	22	2.4	22	84	6	63	39	11	1	47	1.50
43332417--43332472	22	2.5	23	82	5	69	42	8	1	46	1.45
43332653--43332680	2	14.0	2	100	0	56	50	0	0	50	1.00
43338032--43338066	18	1.9	18	88	0	52	8	11	2	77	1.10
43338747--43338794	13	3.7	13	75	10	53	35	4	22	37	1.74
43342819--43342881	22	3.0	21	81	13	67	38	3	0	58	1.14
43345210--43345254	3	15.0	3	100	0	90	66	0	0	33	0.92
43346918--43346981	31	2.0	32	93	3	112	32	9	17	40	1.81
43350790--43350904	60	1.9	60	83	0	149	26	14	30	28	1.95
43353970--43354074	41	2.6	41	83	3	140	26	28	20	24	1.99
43356448--43356472	13	1.9	13	100	0	50	32	4	24	40	1.73
43357633--43357741	42	2.6	42	83	4	130	25	18	24	31	1.98
43357592--43357750	43	3.7	43	73	12	130	25	16	25	32	1.97
43358567--43358592	13	2.0	13	100	0	52	7	0	30	61	1.24
43360167--43360233	29	2.3	29	73	0	71	25	17	17	38	1.92
43361865--43361902	20	1.9	20	84	10	51	55	7	2	34	1.43
43362905--43362950	11	4.0	12	78	16	53	41	2	30	26	1.68
43363612--43363640	15	1.9	15	100	0	58	41	3	6	48	1.47
43369949--43370009	29	2.1	29	100	0	122	34	6	13	45	1.69
43372106--43372148	10	4.4	10	85	5	61	62	2	0	34	1.08
43372360--43372420	15	3.9	15	73	14	61	67	0	3	29	1.07
43372360--43372418	16	3.8	16	72	14	52	66	0	3	30	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43372676--43372728	9	5.7	9	73	8	52	32	0	1	66	1.03
43372667--43372728	19	3.3	18	82	8	70	32	1	1	64	1.13
43376352--43376392	21	2.0	21	90	0	64	34	17	14	34	1.90
43394963--43395004	13	3.3	13	76	6	50	7	30	0	61	1.22
43395903--43395936	17	1.9	18	88	5	52	29	20	8	41	1.82
43396133--43396333	91	2.2	89	78	11	198	30	22	12	33	1.92
43398917--43398945	13	2.1	14	93	6	51	51	20	0	27	1.47
43399651--43399770	41	2.9	41	85	7	163	34	25	18	21	1.96
43399885--43400092	64	3.3	63	90	6	298	41	17	8	32	1.79
43404878--43404956	40	2.0	41	83	11	103	45	2	1	50	1.23
43405952--43406032	26	3.1	26	82	8	76	39	8	2	49	1.47
43405930--43406041	30	3.8	29	73	8	93	37	8	4	50	1.52
43406335--43406362	4	7.0	4	100	0	56	25	0	0	75	0.81
43407291--43407335	20	2.4	19	81	7	56	24	8	6	60	1.51
43416157--43416197	19	2.1	20	86	4	57	56	2	9	31	1.45
43421995--43422090	21	4.6	21	72	5	68	22	14	9	53	1.70
43424872--43424918	23	2.0	24	83	8	60	27	21	10	40	1.86
43425645--43425829	46	4.0	46	90	1	273	30	27	8	34	1.86
43427061--43427102	17	2.6	16	88	7	66	52	21	0	26	1.47
43438188--43438244	22	2.6	22	91	0	87	22	26	15	35	1.94
43440276--43440326	25	1.9	25	84	11	66	41	17	5	35	1.74
43445572--43445649	36	2.2	33	84	11	93	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43448969--43449012	21	2.1	21	83	8	54	50	13	2	34	1.55
43451992--43452068	19	4.1	18	76	20	70	58	3	0	37	1.17
43452006--43452059	27	2.0	27	85	7	74	59	3	0	37	1.15
43452036--43452077	19	2.2	20	87	12	61	66	0	0	33	0.92
43451978--43452080	38	2.6	39	78	15	106	61	3	0	34	1.15
43452043--43452083	9	4.8	9	85	8	50	65	0	0	34	0.93
43452046--43452098	26	2.0	26	89	7	81	64	0	3	32	1.12
43455239--43455338	34	3.1	34	78	11	127	27	32	0	41	1.56
43455302--43455343	22	1.9	22	90	0	66	33	33	0	33	1.58
43455378--43455437	27	2.2	27	79	5	68	38	3	1	56	1.26
43455387--43455439	27	1.9	28	88	3	81	35	1	1	60	1.19
43455389--43455447	27	2.1	28	84	3	75	37	1	1	59	1.18
43456325--43456364	20	2.0	19	85	9	53	35	2	10	52	1.48
43457710--43457812	28	3.9	28	82	12	144	47	21	1	29	1.61
43457715--43458466	23	33.7	23	78	18	739	47	22	1	28	1.61
43457806--43457843	17	2.2	17	95	0	67	52	15	2	28	1.56
43457755--43458466	63	10.8	62	79	15	585	47	22	1	28	1.62
43457869--43457902	17	2.0	17	94	0	59	47	20	0	32	1.51
43457983--43458020	17	2.2	17	90	0	58	55	15	2	26	1.54
43458046--43458097	17	3.0	17	83	13	70	48	25	0	26	1.52
43457755--43458464	149	4.6	148	87	9	852	47	22	1	28	1.62
43458132--43458169	17	2.2	17	90	0	58	55	15	2	26	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43458195--43458246	17	3.0	17	83	13	70	48	25	0	26	1.52
43458281--43458318	17	2.2	17	95	0	67	52	15	2	28	1.56
43458321--43458354	17	2.0	17	94	0	59	47	20	0	32	1.51
43458338--43458410	28	2.6	28	97	0	137	46	19	1	32	1.58
43458338--43458451	28	4.4	28	78	20	131	45	22	0	30	1.59
43458433--43458507	29	2.6	29	76	8	80	42	32	2	22	1.68
43461730--43461996	125	2.1	124	83	4	333	31	22	15	30	1.95
43462583--43462621	17	2.3	17	90	0	60	64	10	10	15	1.50
43469251--43469384	42	3.2	42	80	6	119	16	23	17	42	1.89
43469309--43469373	21	3.1	21	65	0	58	13	24	18	43	1.87
43470847--43470883	11	3.4	11	92	7	58	45	0	0	54	1.00
43478794--43478836	15	2.8	15	82	3	50	62	0	34	2	1.08
43481998--43482022	13	1.9	13	100	0	50	56	4	0	40	1.18
43485516--43485646	59	2.2	58	81	9	142	45	16	12	25	1.83
43490417--43490486	33	2.1	33	91	0	113	55	8	4	31	1.49
43490417--43490496	33	2.4	33	89	0	106	53	10	6	30	1.58
43490417--43490509	33	2.8	33	85	3	89	51	10	5	32	1.59
43491628--43491746	60	2.0	60	93	0	202	52	13	0	33	1.40
43491809--43491834	7	3.7	7	100	0	52	61	0	0	38	0.96
43492357--43492427	37	1.9	37	97	0	133	35	15	22	26	1.94
43494846--43494889	22	2.0	22	95	0	79	47	27	2	22	1.63
43494848--43494896	22	2.2	22	88	0	71	44	30	2	22	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43499538--43499573	17	2.0	19	89	10	58	44	0	5	50	1.25
43499859--43499904	18	2.4	19	82	14	58	50	2	6	41	1.40
43501693--43501738	3	15.3	3	100	0	92	32	0	0	67	0.91
43518937--43518972	17	2.1	17	100	0	72	27	0	5	66	1.13
43518942--43518979	17	2.2	17	90	0	58	31	0	5	63	1.17
43519073--43519109	6	6.2	6	100	0	74	32	16	0	51	1.45
43525056--43525548	94	5.4	89	79	7	359	32	19	20	27	1.96
43525300--43525545	44	5.4	43	70	18	165	35	18	20	25	1.95
43525288--43525578	92	3.1	94	87	6	405	35	18	18	27	1.95
43529852--43529927	23	3.3	23	96	0	143	31	26	21	21	1.98

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