genome.fa.s25.2.7.7.80.10.50.1000.129.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  129  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)
39187308--39187343	17	2.1	17	89	5	54	19	2	11	66	1.35
39188258--39188282	2	12.5	2	100	0	50	48	0	0	52	1.00
39190120--39190282	43	3.8	43	84	9	217	32	25	20	20	1.97
39192497--39192524	7	4.0	7	100	0	56	85	0	0	14	0.59
39193321--39193346	8	3.2	8	100	0	52	38	0	0	61	0.96
39195953--39196096	58	2.5	57	82	6	168	45	0	2	51	1.18
39196264--39196302	16	2.4	16	100	0	78	23	25	10	41	1.86
39207871--39208113	50	4.8	50	93	0	405	20	31	23	25	1.98
39208208--39208238	13	2.4	13	94	0	53	54	12	0	32	1.38
39208451--39208508	30	1.9	30	89	0	89	31	24	3	41	1.71
39211331--39211384	18	3.0	18	83	5	65	37	18	3	40	1.69
39215005--39215148	70	2.1	70	97	0	270	40	11	11	36	1.78
39226393--39226886	249	2.0	248	93	2	841	28	13	19	38	1.90
39238668--39238874	40	5.2	40	86	0	279	20	28	17	33	1.95
39238745--39238845	20	5.1	20	65	4	69	20	32	17	28	1.96
39241585--39241637	24	2.2	24	83	6	63	47	5	1	45	1.37
39242658--39242798	69	2.0	69	95	0	255	36	17	10	35	1.85
39252890--39252916	3	9.0	3	100	0	54	66	0	33	0	0.92
39253409--39253455	21	2.2	21	96	0	85	36	17	8	38	1.80
39254022--39254074	13	4.1	13	80	9	72	35	22	5	35	1.78
39258449--39258526	25	3.2	25	87	1	104	12	34	30	21	1.91
39261505--39261683	99	1.8	98	87	4	272	41	12	11	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39261671--39261739	35	2.0	35	82	0	84	34	17	8	39	1.80
39262110--39262264	41	3.8	41	91	1	240	32	24	18	24	1.97
39268090--39268168	37	2.1	37	90	0	122	25	31	18	24	1.98
39268286--39268604	47	6.7	47	97	1	548	30	30	8	31	1.87
39273764--39273893	46	2.8	45	91	2	197	30	24	9	36	1.87
39274993--39275029	10	3.5	10	86	13	56	56	0	0	43	0.99
39274995--39275038	12	3.8	12	88	11	74	54	0	0	45	0.99
39274993--39275038	22	2.1	22	100	0	92	54	0	0	45	0.99
39276394--39276539	41	3.6	41	83	0	177	36	15	27	21	1.93
39276464--39276527	20	3.2	20	71	4	56	37	17	26	18	1.93
39281193--39281237	3	15.0	3	100	0	90	33	0	0	66	0.92
39281539--39281613	29	2.6	29	78	22	77	20	6	6	66	1.38
39281596--39281634	18	2.2	17	90	4	60	12	5	7	74	1.20
39281749--39282062	110	2.9	109	89	5	449	30	16	19	33	1.94
39285453--39285492	8	5.0	8	85	8	55	80	7	0	12	0.91
39285453--39285492	16	2.5	16	92	8	64	80	7	0	12	0.91
39285453--39285503	16	3.2	16	83	5	50	78	5	3	11	1.06
39285497--39285535	6	6.3	6	83	16	53	76	0	23	0	0.78
39285498--39285537	11	3.1	14	82	17	52	75	0	25	0	0.81
39286649--39286764	43	2.7	44	82	2	128	29	14	31	25	1.95
39287898--39289501	50	32.1	50	70	7	835	32	24	20	23	1.98
39287889--39289021	100	11.4	99	85	2	1238	32	24	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39291253--39291283	10	3.1	10	95	0	53	29	3	0	67	1.06
39291521--39291559	18	2.2	17	90	4	60	12	5	7	74	1.20
39291675--39291987	110	2.9	108	88	5	445	30	16	19	33	1.94
39292347--39292498	35	4.3	35	87	2	180	14	13	32	39	1.85
39297027--39297135	32	3.4	32	80	8	114	44	9	7	38	1.64
39299430--39299470	17	2.4	17	84	8	57	58	0	12	29	1.34
39299477--39299530	11	4.8	11	77	11	56	42	0	27	29	1.56
39300762--39300828	35	1.9	35	93	0	116	44	4	25	25	1.72
39302397--39302435	5	7.8	5	97	0	69	20	23	41	15	1.90
39312566--39312603	12	3.2	12	92	0	58	34	26	23	15	1.95
39316832--39316872	21	2.0	21	90	0	64	19	29	21	29	1.98
39335671--39335855	46	4.0	46	90	0	271	29	25	9	36	1.87
39337084--39337131	17	2.9	17	90	3	71	54	18	0	27	1.44
39348784--39348822	6	6.5	6	100	0	78	15	17	48	17	1.81
39362476--39362599	62	2.0	62	98	0	239	42	16	18	22	1.88
39373070--39373150	36	2.2	36	91	0	126	33	33	18	14	1.92
39375040--39375174	68	2.0	69	85	1	182	50	4	5	40	1.45
39379800--39379883	21	4.1	21	87	6	102	14	23	16	45	1.84
39381777--39381816	21	1.9	21	89	0	62	20	42	20	17	1.89
39382024--39382058	17	1.9	19	88	11	56	17	8	8	65	1.44
39383534--39383660	30	4.4	30	91	5	158	38	0	18	43	1.50
39383775--39384447	125	5.4	126	88	2	937	39	15	17	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39383775--39384447	249	2.7	249	87	2	938	39	15	17	27	1.90
39384518--39384588	25	2.8	25	82	4	81	52	1	23	22	1.55
39385884--39385915	15	2.1	16	94	5	57	31	0	6	62	1.20
39386589--39386622	18	1.9	18	88	5	52	26	2	8	61	1.40
39388622--39388766	27	5.4	27	85	0	157	19	17	20	42	1.89
39402565--39402598	17	2.0	17	88	0	50	67	14	0	17	1.23
39402965--39403000	12	3.0	12	84	15	56	80	2	0	16	0.83
39414278--39414387	42	2.6	43	79	4	125	33	20	17	28	1.95
39421732--39421850	23	5.2	23	83	0	157	29	24	22	23	1.99
39421736--39421850	46	2.5	46	94	0	194	29	25	22	22	1.99
39424950--39424993	18	2.4	19	85	11	65	25	2	45	27	1.65
39435200--39435234	3	11.7	3	100	0	70	65	0	0	34	0.93
39445323--39445355	16	2.1	16	100	0	66	36	6	36	21	1.78
39445588--39445622	18	2.0	17	88	5	52	54	0	0	45	0.99
39450440--39450479	21	1.9	21	90	10	64	40	2	5	52	1.37
39455250--39455307	27	2.1	27	83	3	71	31	20	13	34	1.92
39455216--39455307	28	3.3	27	74	6	76	30	22	13	33	1.92
39455261--39455318	27	2.1	27	84	6	73	31	20	8	39	1.83
39458138--39458210	36	2.0	36	100	0	146	34	19	10	35	1.87
39459601--39459681	21	3.9	21	85	0	108	18	33	18	29	1.95
39462470--39462550	42	1.9	43	87	7	121	66	0	3	29	1.09
39469083--39469108	3	8.7	3	100	0	52	0	30	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39472168--39472370	41	4.6	41	80	14	226	27	19	28	25	1.99
39472272--39472296	12	2.1	12	100	0	50	24	16	24	36	1.94
39472231--39472331	53	1.9	53	97	0	193	28	17	25	27	1.98
39472190--39472370	94	1.9	95	90	1	292	27	18	27	26	1.98
39473084--39473210	39	3.3	39	88	3	193	34	2	0	62	1.08
39473136--39473201	11	6.4	11	75	21	63	37	3	0	59	1.13
39473088--39473169	30	2.8	30	78	10	80	35	2	0	62	1.09
39475848--39475905	27	2.1	27	81	6	64	58	3	5	32	1.37
39477280--39477707	132	3.2	132	88	1	626	24	24	20	31	1.98
39492714--39492739	13	2.0	13	100	0	52	53	7	0	38	1.30
39495867--39495907	20	2.0	20	100	0	82	36	24	19	19	1.95
39496743--39496802	25	2.4	25	75	5	68	38	18	25	18	1.93
39498381--39498422	20	2.1	20	86	0	57	47	0	7	45	1.30
39505229--39505281	23	2.4	22	76	20	56	9	18	1	69	1.25
39512099--39512165	32	2.1	32	100	0	134	28	35	26	8	1.87
39514253--39514494	50	4.7	50	80	4	218	23	25	21	29	1.99
39528982--39529038	22	2.6	23	83	8	73	43	19	22	14	1.86
39530058--39530104	24	2.0	24	86	0	67	38	8	6	46	1.60
39530643--39530674	16	2.0	16	100	0	64	31	18	12	37	1.88
39533081--39533145	2	32.5	2	100	0	130	0	50	0	49	1.00
39535432--39535519	27	3.3	27	91	0	140	43	9	10	37	1.70
39536855--39536895	19	2.1	19	86	4	55	78	0	14	7	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39547486--39547553	16	4.2	16	90	0	109	26	2	33	36	1.72
39547789--39547823	18	2.0	17	88	5	52	54	0	0	45	0.99
39547683--39547991	157	2.0	156	96	0	573	44	2	4	47	1.39
39547926--39547967	15	2.7	16	82	14	52	52	2	0	45	1.13
39547935--39547973	15	2.7	15	88	7	55	53	0	0	46	1.00
39548044--39548095	15	3.6	15	80	12	56	53	1	0	44	1.11
39547929--39548442	120	4.3	120	96	1	928	49	5	2	42	1.38
39548164--39548335	15	11.6	15	65	21	60	50	4	1	43	1.33
39554289--39554323	17	2.0	18	88	5	54	42	5	2	48	1.41
39554332--39554368	17	2.3	15	90	9	56	51	0	2	45	1.15

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