genome.fa.s25.2.7.7.80.10.50.1000.165.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  165  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)
48818873--48818900	9	3.1	9	100	0	56	57	10	0	32	1.33
48818843--48819052	68	3.1	68	97	1	388	45	9	4	40	1.57
48818941--48818968	9	3.1	9	100	0	56	57	10	0	32	1.33
48819186--48819216	5	6.2	5	92	0	53	3	41	54	0	1.16
48827091--48827133	21	2.0	23	90	9	72	39	0	4	55	1.20
48827091--48827141	20	2.5	21	81	12	61	39	0	5	54	1.24
48831064--48831214	41	3.7	41	94	0	257	27	21	27	22	1.99
48832578--48832669	45	2.0	45	95	0	166	33	8	7	50	1.62
48833096--48833165	31	2.3	30	76	11	70	31	15	20	32	1.94
48833189--48833329	59	2.3	63	77	12	136	46	14	15	24	1.83
48836648--48836720	26	2.8	26	82	0	101	42	12	13	31	1.81
48838759--48838794	18	2.0	18	100	0	72	44	16	16	22	1.86
48842590--48842630	6	6.8	6	100	0	82	0	0	51	48	1.00
48846466--48846503	16	2.6	14	88	12	51	76	0	10	13	1.02
48846466--48846498	15	2.1	16	88	5	50	75	0	12	12	1.04
48864410--48864487	41	1.9	41	89	0	120	32	26	21	19	1.97
48864461--48864504	16	2.8	16	89	0	70	34	27	22	15	1.95
48866600--48866653	28	1.9	28	84	0	72	61	3	5	29	1.36
48873333--48873373	21	1.9	22	85	5	57	68	0	26	4	1.10
48877262--48877510	50	4.8	50	85	4	284	20	29	24	26	1.99
48877261--48877510	100	2.4	104	88	6	357	20	29	24	26	1.99
48877605--48877636	13	2.5	13	94	0	55	56	12	0	31	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48877848--48877905	30	1.9	30	89	0	89	31	24	3	41	1.71
48882543--48882628	3	28.7	3	92	0	145	33	31	1	33	1.66
48885232--48885468	118	2.0	120	95	1	433	44	14	7	33	1.74
48889281--48889391	45	2.5	44	83	4	134	27	28	15	28	1.96
48889149--48889405	41	5.8	45	73	11	142	29	23	17	29	1.97
48890181--48890233	24	2.2	24	79	0	61	30	24	13	32	1.93
48890703--48890899	108	1.8	108	87	0	295	45	10	17	26	1.81
48902603--48902639	19	1.9	19	88	0	56	59	5	5	29	1.42
48904316--48904360	24	1.9	23	82	13	56	48	24	6	20	1.73
48910910--48910979	33	2.2	33	82	10	83	31	22	12	32	1.92
48910803--48911042	101	2.4	101	92	0	399	28	25	15	31	1.95
48917673--48917699	3	9.0	3	100	0	54	66	0	0	33	0.92
48918458--48918491	11	3.0	11	86	4	50	11	0	2	85	0.71
48919514--48919703	88	2.2	88	98	0	362	25	23	24	26	2.00
48919666--48920105	44	10.2	44	75	8	325	29	26	17	27	1.97
48919721--48920107	132	3.0	132	94	3	668	29	26	16	26	1.97
48919943--48920093	78	1.9	78	81	5	180	32	27	15	24	1.96
48932416--48932483	23	3.1	22	75	16	61	23	0	13	63	1.30
48947464--48947521	28	2.0	30	83	12	77	10	24	0	65	1.23
48952072--48952269	71	2.8	71	80	1	236	27	18	23	31	1.97
48954814--48954866	23	2.3	23	83	6	72	35	24	16	22	1.95
48955092--48955130	18	2.2	17	86	13	53	46	20	0	33	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48956040--48956065	11	2.4	11	100	0	52	7	7	19	65	1.43
48956783--48956933	42	3.6	42	83	4	187	28	17	25	29	1.97
48958052--48958102	17	3.0	17	97	0	93	35	13	11	39	1.82
48958804--48958888	21	3.9	23	80	11	108	36	24	22	16	1.94
48958804--48958888	44	2.0	41	86	6	116	36	24	22	16	1.94
48959933--48959962	16	1.9	15	93	6	51	6	20	0	73	1.05
48959968--48960003	5	7.0	5	96	3	63	58	0	0	41	0.98
48959968--48960043	15	4.6	16	71	22	68	52	3	0	43	1.19
48970131--48970175	23	2.0	23	81	0	54	28	51	8	11	1.68
48978407--48978467	30	2.0	30	96	0	113	34	3	18	44	1.66
48978783--48978891	38	2.9	38	84	6	141	40	2	18	38	1.65
48978986--48979044	28	2.1	28	96	0	109	30	20	16	32	1.95
48981189--48981440	93	2.7	92	85	2	319	30	13	15	41	1.84
48986010--48986445	114	3.8	114	80	4	369	33	21	19	25	1.96
48991024--48991096	12	5.9	12	73	12	67	28	16	10	43	1.82
48991024--48991065	14	3.2	14	83	9	54	21	16	9	52	1.72
48991514--48992088	286	2.0	286	99	0	1141	26	21	14	37	1.91
48995456--48995517	25	2.5	24	79	5	70	27	1	20	50	1.58
49000046--49000083	17	2.2	17	90	0	58	60	2	2	34	1.24
49002038--49002075	17	2.2	17	90	0	58	60	2	2	34	1.24
49008372--49008428	3	19.3	3	78	10	64	33	5	0	61	1.18
49008371--49008426	22	2.5	23	88	5	89	35	5	0	58	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49008371--49008439	22	3.0	22	78	18	61	33	5	0	60	1.20
49008372--49008446	25	3.1	24	75	14	75	33	5	0	61	1.19
49008442--49008494	22	2.4	22	84	6	63	39	11	1	47	1.50
49008451--49008509	22	2.7	22	84	5	66	37	10	3	49	1.54
49008621--49008674	25	2.2	25	80	12	58	42	5	1	50	1.36
49014998--49015045	13	3.8	12	78	10	51	35	4	20	39	1.72
49015223--49015278	24	2.3	24	78	9	60	46	0	1	51	1.11
49025078--49025140	22	3.0	21	81	13	67	38	3	0	58	1.14
49029200--49029263	31	2.0	32	93	3	112	31	9	17	42	1.81
49037924--49037949	13	2.0	13	100	0	52	7	0	30	61	1.24
49039846--49039976	70	1.9	70	95	0	235	51	12	0	36	1.40
49039874--49039931	25	2.3	25	93	0	98	46	13	0	39	1.44
49039899--49039986	45	2.0	45	90	0	140	52	11	0	36	1.38
49041292--49041329	20	1.9	20	84	10	51	55	7	2	34	1.43
49042105--49042164	22	2.8	21	80	12	59	56	3	0	40	1.16
49042147--49042252	11	10.4	11	72	24	81	59	0	0	39	1.04
49042136--49042269	40	3.3	40	85	6	182	64	0	0	35	0.99
49042796--49042893	51	1.9	51	89	4	153	46	3	22	27	1.66
49042869--49042930	11	5.6	11	90	3	90	41	1	33	22	1.64
49044624--49044756	41	3.1	41	85	5	176	27	5	21	46	1.72
49044622--49044769	64	2.2	67	91	5	239	26	5	22	45	1.73
49044622--49044772	23	6.8	23	85	7	213	25	5	21	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49044771--49045131	25	14.9	25	72	17	280	44	15	0	40	1.46
49044771--49045131	121	3.0	121	97	0	668	44	15	0	40	1.46
49046246--49046277	7	4.6	7	96	0	55	62	12	0	25	1.30
49046240--49046277	14	2.7	14	87	0	58	60	13	0	26	1.33
49047390--49047513	51	2.4	51	89	2	187	43	0	25	29	1.60
49047493--49047528	11	3.2	11	88	4	54	50	0	33	16	1.46
49048190--49048218	15	1.9	15	100	0	58	41	3	6	48	1.47
49056699--49056740	10	4.3	10	81	6	50	64	2	0	33	1.07
49056829--49056861	6	5.5	6	100	0	66	84	0	0	15	0.61
49056829--49056879	16	3.1	16	85	5	57	76	0	1	21	0.88
49056956--49057016	15	3.9	15	73	14	61	67	0	3	29	1.07
49056956--49057014	16	3.8	16	72	14	52	66	0	3	30	1.08
49057277--49057322	20	2.5	19	80	13	60	30	0	2	67	1.03
49057277--49057324	18	2.6	18	87	9	62	29	0	2	68	1.01
49057514--49057584	32	2.2	32	79	0	79	35	23	15	25	1.94
49059722--49059760	19	2.1	19	85	9	53	66	0	0	33	0.92
49061002--49061046	21	2.1	21	88	8	65	31	22	15	31	1.95
49062605--49062640	17	2.1	18	89	5	56	63	0	8	27	1.23
49079731--49079772	13	3.3	13	76	6	50	7	30	0	61	1.22
49080885--49081089	91	2.3	88	80	6	225	31	23	13	31	1.93
49082744--49082809	29	2.3	27	73	19	62	34	4	4	56	1.40
49082748--49082810	31	2.1	29	82	11	74	36	4	4	53	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49083735--49083997	41	6.4	41	93	1	438	16	17	27	38	1.91
49083735--49084027	123	2.4	123	86	4	369	17	18	26	37	1.93
49083735--49084077	123	2.8	123	83	5	338	18	18	25	37	1.93
49084437--49084518	16	5.3	16	69	16	57	24	1	24	50	1.57
49084542--49084582	22	1.9	21	85	14	57	19	0	24	56	1.42
49088789--49088845	9	6.7	9	76	9	57	42	12	1	43	1.52
49088812--49088843	16	2.0	16	93	0	55	46	12	0	40	1.42
49088955--49089007	12	4.6	12	83	9	74	52	16	0	30	1.44
49088955--49089007	22	2.3	24	87	6	74	52	16	0	30	1.44
49089061--49089488	9	47.1	9	78	5	432	47	17	3	31	1.63

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