genome.fa.s20.2.7.7.80.10.50.1000.117.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  117  of  199  ( 23844 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)
33435019--33435072	27	2.0	27	85	7	74	27	18	18	35	1.94
33436444--33436489	18	2.6	18	85	0	65	56	4	15	23	1.57
33436473--33436498	12	2.2	12	100	0	52	61	0	7	30	1.24
33437171--33437215	22	2.0	22	87	8	65	73	4	20	2	1.11
33437681--33437886	27	7.7	27	87	0	288	18	16	22	41	1.90
33439614--33439707	47	2.0	47	100	0	188	34	31	14	19	1.92
33441612--33441656	13	3.5	13	93	0	72	24	6	15	53	1.66
33442116--33442159	21	2.1	21	100	0	88	36	0	13	50	1.42
33447644--33447679	14	2.6	14	95	0	63	77	13	5	2	1.05
33447716--33447749	15	2.3	15	89	0	50	20	0	5	73	1.04
33462323--33462347	5	5.0	5	100	0	50	60	20	0	20	1.37
33466340--33466370	15	2.1	15	100	0	62	38	6	32	22	1.80
33472749--33473247	47	10.4	47	90	2	701	32	8	29	29	1.87
33473366--33473444	37	2.1	37	90	0	122	24	18	31	25	1.98
33480881--33480924	17	2.6	17	85	3	63	47	0	11	40	1.39
33480853--33480959	33	3.4	33	70	21	86	52	1	11	34	1.48
33480835--33480964	60	2.2	59	81	9	151	51	1	10	36	1.46
33481044--33481082	3	13.0	3	94	0	69	64	0	2	33	1.08
33481048--33481122	21	3.3	23	80	9	75	66	2	2	28	1.18
33481384--33481441	22	2.6	22	81	7	64	43	17	5	34	1.71
33481420--33481467	21	2.4	20	83	10	62	39	14	10	35	1.80
33481454--33481479	12	2.2	12	100	0	52	42	15	7	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33482264--33482471	44	4.7	44	82	4	251	30	26	16	26	1.97
33482534--33482674	44	3.2	43	69	7	140	16	26	29	26	1.97
33482471--33482702	88	2.6	88	93	1	385	18	22	30	28	1.98
33482471--33482693	44	5.1	43	65	8	119	18	22	30	27	1.98
33482685--33482970	44	6.5	43	75	11	231	30	24	16	28	1.97
33482693--33482970	132	2.1	132	89	1	432	29	25	15	29	1.96
33487991--33488031	22	1.9	21	90	5	64	73	7	0	19	1.07
33488398--33488441	17	2.6	17	85	3	63	47	0	11	40	1.39
33488367--33488481	60	1.9	58	81	10	133	52	1	11	34	1.48
33488561--33488614	3	18.0	3	96	0	99	64	0	1	33	1.04
33488913--33488970	22	2.6	22	81	7	64	41	17	5	36	1.72
33488926--33488996	21	3.4	20	82	11	72	40	14	8	36	1.76
33499863--33499910	18	2.7	18	90	0	78	14	22	0	62	1.32
33499905--33499981	34	2.3	34	93	0	127	15	29	14	40	1.87
33515740--33515794	15	3.8	15	85	2	69	1	21	1	74	1.01
33520587--33520628	22	1.9	22	95	0	75	23	7	0	69	1.13
33523353--33523566	107	2.0	107	100	0	428	30	19	9	40	1.83
33525384--33525431	20	2.4	20	100	0	96	54	4	14	27	1.59
33525384--33525438	20	2.8	20	91	2	67	58	3	12	25	1.51
33525401--33525444	20	2.2	20	83	0	52	54	2	15	27	1.53
33530780--33530964	79	2.3	81	82	7	218	24	26	22	25	2.00
33530761--33530964	40	5.1	40	79	8	202	24	26	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33537117--33537189	23	3.2	23	88	0	110	28	24	21	24	1.99
33537276--33537304	8	3.6	8	100	0	58	34	27	13	24	1.93
33537423--33537461	18	2.2	17	86	13	53	46	20	0	33	1.51
33548890--33549156	81	3.3	81	85	1	356	40	22	19	18	1.92
33548890--33549156	27	9.9	27	85	0	309	40	22	19	18	1.92
33555161--33555452	146	2.0	146	92	2	489	27	23	23	24	2.00
33555440--33555929	27	18.3	27	84	1	473	42	19	18	18	1.89
33555440--33555929	107	4.6	107	80	3	502	42	19	18	18	1.89
33557882--33557934	25	2.1	26	85	3	72	41	7	9	41	1.66
33558033--33558063	6	5.2	6	100	0	62	16	0	0	83	0.64
33565007--33565073	33	2.0	33	94	0	116	38	20	20	19	1.93
33566397--33566425	14	2.1	14	100	0	58	6	31	13	48	1.69
33572889--33572952	28	2.3	28	83	0	92	32	23	17	26	1.96
33593432--33593460	12	2.3	13	94	5	51	65	6	6	20	1.40
33595087--33595143	23	2.4	23	82	2	78	71	8	0	19	1.11
33595107--33595139	8	4.2	8	84	7	50	63	12	0	24	1.28
33595095--33595169	27	3.1	24	75	15	75	66	12	0	21	1.23
33603145--33603174	3	10.0	3	92	0	51	63	0	3	33	1.11
33603738--33603776	16	2.7	16	85	14	50	61	0	0	38	0.96
33603881--33603918	14	2.4	17	87	12	55	52	0	0	47	1.00
33603898--33603936	12	3.4	11	80	13	51	46	2	0	51	1.14
33605351--33605392	6	7.0	6	78	10	50	16	4	0	78	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33605351--33605398	23	2.0	25	92	8	82	14	8	0	77	0.99
33606747--33606786	20	2.1	20	86	9	57	25	5	10	60	1.49
33609944--33610545	87	6.9	87	88	0	866	24	23	22	30	1.99
33610267--33610404	44	3.2	44	66	13	113	26	25	22	25	2.00
33611777--33611830	7	8.0	7	91	4	85	14	27	0	57	1.38
33612737--33612814	40	1.9	41	92	2	131	8	8	10	71	1.30
33622130--33622299	6	27.8	6	94	3	187	17	8	0	74	1.05
33623223--33623480	29	8.9	29	79	4	196	36	13	24	24	1.92
33636733--33637220	120	4.1	120	93	3	842	42	1	4	52	1.28
33636927--33636964	18	2.2	17	90	4	58	34	2	0	63	1.09
33637048--33637200	16	9.0	17	65	22	65	41	1	1	55	1.19
33637358--33637453	45	2.2	44	90	5	149	36	29	4	30	1.76
33637439--33637503	16	4.1	16	95	0	121	24	33	4	36	1.76
33641995--33642386	101	3.8	100	86	4	500	26	23	30	20	1.98
33642006--33642393	150	2.5	151	91	3	591	25	22	30	20	1.98
33641995--33642393	50	7.8	50	86	4	496	25	23	30	20	1.98
33643725--33643754	12	2.5	12	94	0	51	6	23	40	30	1.80
33644615--33644674	21	2.9	21	89	0	93	50	18	20	11	1.77
33647496--33647522	2	13.5	2	100	0	54	48	0	0	51	1.00
33648697--33648731	14	2.5	14	90	0	52	28	22	20	28	1.98
33648911--33648938	8	3.5	8	100	0	56	53	21	10	14	1.70
33652680--33652744	13	5.5	13	72	20	70	47	15	0	36	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33652680--33652753	23	3.2	23	94	0	121	48	14	0	36	1.45
33653544--33653605	30	2.1	30	84	6	81	35	17	12	33	1.88
33654047--33654073	10	2.7	10	100	0	54	74	14	0	11	1.08
33654714--33654749	18	1.9	18	88	5	54	44	0	0	55	0.99
33654968--33655011	18	2.5	18	92	3	72	50	4	0	45	1.22
33655240--33655293	22	2.3	24	78	9	58	40	7	0	51	1.30
33656090--33656125	2	18.0	2	100	0	72	0	50	0	50	1.00
33669271--33669314	22	2.0	22	90	0	70	56	6	2	34	1.38
33671707--33671794	43	2.0	43	95	0	158	37	17	7	37	1.79
33673633--33673879	76	3.3	76	82	5	234	40	14	10	34	1.80
33674412--33674436	2	12.5	2	100	0	50	48	0	0	52	1.00
33678471--33678587	48	2.3	48	82	7	135	25	8	15	50	1.72
33678889--33678959	31	2.3	31	85	2	90	35	8	9	46	1.67
33680909--33680973	31	2.1	31	91	0	103	32	6	12	49	1.65
33681571--33681768	43	4.6	42	87	2	279	25	28	19	26	1.99
33681571--33681768	85	2.3	86	89	0	299	25	28	19	26	1.99
33682253--33682309	29	2.0	29	96	0	105	31	26	28	14	1.94
33682365--33682507	43	3.3	42	71	13	119	18	18	32	30	1.95
33682385--33682567	87	2.1	86	91	1	294	17	16	34	31	1.92
33682385--33682567	43	4.2	43	80	6	192	17	16	34	31	1.92
33682408--33682586	86	2.1	87	82	3	218	18	20	31	29	1.96
33682556--33682761	43	4.8	43	80	7	213	29	31	17	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33682556--33682741	85	2.2	84	87	2	255	26	31	18	22	1.97
33682617--33682776	85	1.9	85	80	6	189	31	31	15	20	1.94
33683114--33683226	21	5.4	21	86	0	118	5	42	16	35	1.71
33683203--33683362	66	2.4	66	85	4	207	13	28	18	40	1.88
33688770--33688992	16	13.9	16	65	20	99	37	1	16	44	1.58
33688784--33688927	25	5.7	25	71	12	96	37	2	15	45	1.58
33688845--33689472	9	70.7	9	69	20	174	39	1	13	46	1.51
33688845--33689028	34	5.5	33	70	15	119	38	2	16	42	1.61
33688845--33689086	25	9.6	24	68	18	95	38	2	16	42	1.60
33688846--33689086	100	2.4	100	95	2	419	38	2	17	42	1.61

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