genome.fa.s25.2.7.7.80.10.50.1000.11.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  11  of  214  ( 25680 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)
3227081--3227123	21	2.1	20	91	4	68	37	13	9	39	1.78
3227120--3227284	75	2.2	74	84	5	208	31	12	9	46	1.73
3227081--3227284	37	5.5	37	76	13	179	31	12	9	46	1.75
3227317--3227429	20	6.3	17	68	17	59	36	7	11	44	1.70
3227294--3227372	37	2.1	37	85	2	104	40	6	10	43	1.64
3227307--3227390	37	2.2	38	85	4	107	40	9	10	39	1.73
3227304--3227427	55	2.2	57	84	8	155	37	8	11	42	1.72
3227358--3227462	36	2.9	35	84	13	133	36	9	10	43	1.72
3232832--3232899	1	68.0	1	76	0	64	88	8	2	0	0.62
3232832--3232887	10	5.4	10	85	14	78	89	10	0	0	0.49
3232832--3232899	17	4.1	16	83	10	84	88	8	2	0	0.62
3232832--3232899	24	2.8	23	84	8	82	88	8	2	0	0.62
3232832--3232887	18	3.3	18	87	7	75	89	10	0	0	0.49
3232832--3232899	31	2.2	31	89	7	102	88	8	2	0	0.62
3233841--3233879	19	2.1	19	100	0	78	25	12	10	51	1.71
3233781--3233953	92	1.9	94	92	2	296	27	15	19	38	1.91
3233862--3235123	75	16.7	74	88	5	1232	27	16	20	36	1.93
3233872--3235117	77	16.5	77	85	7	1047	27	16	20	36	1.94
3233872--3235138	154	8.4	153	86	6	1217	27	16	20	35	1.94
3233872--3235117	231	5.5	226	85	7	1156	27	16	20	36	1.94
3235327--3235451	29	4.2	29	80	11	130	31	24	5	39	1.78
3235673--3235706	12	2.8	12	86	0	50	73	14	11	0	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235823--3235853	16	1.9	16	93	0	53	74	0	25	0	0.82
3235956--3236028	4	17.8	4	73	16	60	73	1	24	0	0.90
3235959--3236019	13	4.8	13	79	18	74	75	0	24	0	0.80
3235956--3236044	29	3.0	30	79	12	96	73	1	25	0	0.91
3235957--3236044	24	3.7	24	78	14	94	73	1	25	0	0.90
3235968--3236006	6	6.5	6	82	11	53	71	0	28	0	0.86
3235959--3236043	38	2.4	37	83	13	106	74	1	24	0	0.89
3236775--3236975	17	10.8	17	69	18	109	32	13	10	43	1.78
3236784--3236826	21	2.1	20	91	4	68	37	13	9	39	1.78
3236823--3236985	75	2.1	75	89	4	247	34	12	9	42	1.76
3237023--3237058	17	2.2	17	90	5	56	36	5	11	47	1.63
3236823--3237079	37	6.6	38	73	16	188	34	11	10	43	1.75
3237064--3237170	37	2.9	36	80	13	112	37	11	10	41	1.75
3237060--3237170	35	3.1	34	81	10	123	39	10	9	39	1.74
3237010--3237129	57	2.1	58	84	4	154	35	10	11	42	1.75
3237013--3237135	20	6.4	19	69	17	85	38	10	10	40	1.74
3238101--3238358	131	2.0	132	96	0	482	37	10	8	42	1.71
3245109--3245179	35	2.0	35	97	0	133	38	11	4	46	1.59
3248323--3248359	19	2.0	20	89	10	60	54	8	5	32	1.53
3263759--3263878	45	2.7	45	78	8	120	38	14	19	28	1.90
3263840--3263997	31	5.1	31	75	4	140	37	15	17	29	1.91
3263838--3263997	62	2.6	62	80	2	178	38	15	17	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3270069--3270156	31	2.9	30	78	5	88	32	12	14	39	1.84
3270580--3270613	17	2.0	17	94	0	59	61	0	5	32	1.20
3276116--3276141	7	3.7	7	100	0	52	15	0	69	15	1.20
3276142--3276201	30	2.0	30	83	3	75	41	0	38	20	1.52
3276414--3276450	9	4.1	9	92	0	65	29	10	13	45	1.77
3283794--3283835	21	2.0	20	82	13	50	61	4	2	30	1.29
3285594--3285632	13	3.0	13	96	0	69	15	5	46	33	1.68
3285852--3285908	25	2.3	25	81	6	62	3	29	0	66	1.08
3287776--3287811	15	2.4	15	90	0	54	69	2	0	27	1.02
3287807--3287908	30	3.4	31	83	5	122	29	22	3	44	1.71
3288134--3288182	20	2.4	21	89	3	73	69	6	12	12	1.35
3288279--3288337	3	18.0	3	83	13	64	64	1	33	0	1.04
3288279--3288347	13	5.2	13	81	11	70	68	1	30	0	0.99
3288393--3288435	18	2.3	18	84	4	50	30	51	16	2	1.57
3288617--3288694	23	3.3	23	75	18	79	80	0	19	0	0.71
3288634--3288685	7	7.0	7	89	10	77	82	0	17	0	0.66
3288634--3288685	15	3.5	14	89	10	77	82	0	17	0	0.66
3288630--3288695	8	8.4	8	83	13	75	80	0	19	0	0.72
3288617--3288695	30	2.7	30	75	12	94	79	0	20	0	0.73
3289247--3289290	23	2.0	22	86	8	63	54	15	4	25	1.60
3289286--3289448	17	9.4	17	78	9	159	30	12	10	47	1.74
3289286--3289448	35	4.7	34	79	8	168	30	12	10	47	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3289409--3289537	35	3.4	37	75	13	120	36	9	12	41	1.75
3295969--3296463	123	4.0	123	84	5	663	28	14	20	36	1.92
3295962--3296501	251	2.1	253	94	0	949	29	14	20	35	1.92
3296372--3296901	72	7.2	72	87	4	688	30	16	18	34	1.93
3296376--3296905	145	3.6	146	89	4	725	30	16	18	34	1.93
3296823--3297040	86	2.5	86	89	1	330	27	17	19	35	1.94
3296984--3297210	58	4.1	56	80	6	248	31	16	17	35	1.92
3296984--3297210	55	4.1	55	77	7	251	31	16	17	35	1.92
3297483--3297584	30	3.4	31	83	5	122	29	22	3	44	1.71
3297811--3297858	20	2.3	21	89	3	71	70	6	10	12	1.32
3297960--3298017	3	17.7	3	86	13	71	67	0	32	0	0.91
3297960--3298017	10	5.9	9	83	16	71	67	0	32	0	0.91
3297959--3298026	13	5.5	13	80	15	81	70	0	29	0	0.87
3298070--3298112	18	2.3	18	84	4	50	30	51	16	2	1.57
3298297--3298374	23	3.3	23	75	18	79	80	0	19	0	0.71
3298314--3298365	7	7.0	7	89	10	77	82	0	17	0	0.66
3298314--3298365	15	3.5	14	89	10	77	82	0	17	0	0.66
3298310--3298375	8	8.4	8	83	13	75	80	0	19	0	0.72
3298297--3298375	30	2.7	30	75	12	94	79	0	20	0	0.73
3298926--3298968	22	2.0	22	86	8	63	53	16	4	25	1.62
3298964--3299126	17	9.4	17	78	9	159	30	12	10	47	1.74
3298964--3299126	35	4.7	34	79	8	168	30	12	10	47	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3299087--3299215	35	3.4	37	75	13	120	36	9	12	41	1.75
3301013--3301107	38	2.5	38	85	0	127	36	14	16	31	1.90
3308423--3308486	31	2.0	31	82	14	78	35	1	4	57	1.29
3314793--3314846	28	1.9	28	92	0	90	38	3	0	57	1.17
3315200--3315230	16	1.9	16	93	0	53	61	3	0	35	1.12
3318594--3318654	27	2.3	27	82	0	77	18	24	32	24	1.97
3321725--3321945	21	10.4	21	68	21	113	57	11	0	31	1.35
3321730--3321792	19	3.2	19	86	6	72	57	9	0	33	1.31
3321847--3321941	48	2.0	47	93	6	165	56	12	0	30	1.36
3321714--3322021	61	4.9	62	73	17	230	57	11	0	31	1.34
3322033--3322058	7	3.7	7	100	0	52	61	0	0	38	0.96
3323474--3323533	3	19.7	3	81	3	66	56	1	3	38	1.26
3324937--3324991	27	2.0	27	82	0	65	27	29	18	25	1.98
3332861--3332913	26	1.9	29	85	11	76	33	1	0	64	1.05
3337845--3337890	12	4.0	11	81	10	56	23	15	13	47	1.80
3339287--3339381	23	4.2	22	77	7	77	15	14	27	42	1.86
3339302--3339387	23	3.8	22	78	6	91	16	16	25	41	1.88
3344236--3344310	37	2.0	38	86	2	107	56	9	20	14	1.66
3348022--3348066	21	2.1	21	87	0	63	37	0	2	60	1.09
3348926--3349223	42	7.1	39	75	11	170	22	5	54	18	1.63
3348926--3349063	63	2.2	63	97	0	258	21	5	55	18	1.62
3348943--3349168	105	2.2	105	97	0	425	22	5	55	16	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3348943--3349387	105	4.2	105	81	7	365	21	5	54	19	1.63
3348990--3349231	42	5.8	42	77	13	214	22	4	54	17	1.62
3348969--3349223	63	4.0	63	87	4	309	22	5	54	17	1.62
3348926--3349339	168	2.5	161	86	7	517	21	4	54	19	1.62
3349263--3349385	42	2.8	43	83	8	160	20	4	54	20	1.62
3349285--3349354	21	3.3	21	76	7	70	20	4	57	18	1.57
3349232--3349336	24	4.5	25	71	13	80	16	4	56	22	1.59
3349307--3349367	18	3.1	18	75	24	68	26	4	54	14	1.61
3349252--3349338	24	3.8	24	72	14	83	19	5	56	18	1.61
3355779--3355827	22	2.2	22	92	0	80	28	30	20	20	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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214