genome.fa.s25.2.7.7.80.10.50.1000.194.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  194  of  196  ( 23409 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)
57979957--57980010	28	2.0	28	89	7	85	44	0	3	51	1.19
57984373--57984501	52	2.5	52	100	0	258	33	22	18	25	1.97
57990306--57990429	57	2.2	56	91	1	203	27	27	3	41	1.71
57992435--57992495	31	2.0	29	93	6	104	29	0	13	57	1.36
57992623--57992708	31	2.8	32	76	11	92	45	13	5	34	1.68
57993099--57993162	23	3.0	22	75	16	57	53	0	1	45	1.10
57994000--57994041	22	2.0	21	85	4	57	64	7	0	28	1.20
58002091--58002148	29	2.0	29	82	0	71	39	5	12	43	1.64
58004729--58004771	11	3.8	11	80	17	52	65	2	2	30	1.18
58005149--58005186	3	12.7	3	100	0	76	34	0	0	65	0.93
58005791--58005851	20	3.0	20	74	6	70	27	4	3	63	1.30
58010656--58010746	37	2.5	37	100	0	182	39	15	14	30	1.87
58012949--58012982	6	5.7	6	89	10	52	85	14	0	0	0.60
58012949--58012982	11	2.8	12	91	8	52	85	14	0	0	0.60
58017811--58017846	16	2.2	16	90	5	54	16	5	11	66	1.40
58020098--58020130	14	2.3	15	94	5	59	33	0	30	36	1.58
58020219--58020369	83	1.8	83	85	5	218	30	2	23	43	1.68
58020507--58020545	7	5.6	7	81	0	51	23	0	51	25	1.49
58020968--58021002	15	2.2	16	95	5	63	37	0	11	51	1.38
58022909--58022948	21	1.9	21	94	0	71	40	25	15	20	1.90
58023238--58023334	45	2.2	45	90	0	149	41	4	7	47	1.50
58023368--58023393	12	2.2	12	100	0	52	38	7	7	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58023396--58023558	12	15.1	12	66	24	55	49	17	1	31	1.57
58023408--58023891	9	56.4	9	67	18	196	46	18	2	32	1.62
58023437--58023482	7	6.6	7	78	16	51	60	10	0	28	1.30
58023437--58023482	15	3.3	15	82	11	62	60	10	0	28	1.30
58023411--58023575	64	2.6	63	77	15	185	47	18	1	32	1.59
58023499--58023626	25	5.2	25	78	7	129	43	23	3	29	1.69
58023386--58023805	41	10.3	42	67	20	155	46	18	3	31	1.65
58023448--58023895	16	26.1	16	67	17	136	46	18	2	31	1.63
58023759--58023839	34	2.4	33	82	12	85	45	20	3	29	1.69
58023518--58023905	120	3.2	120	87	5	495	45	20	2	31	1.64
58023865--58023904	16	2.5	16	87	0	53	47	20	2	30	1.63
58025914--58025951	19	2.0	19	94	0	67	28	10	2	57	1.45
58026151--58026295	43	3.4	43	92	0	236	26	19	29	24	1.98
58033509--58033584	36	2.0	38	85	10	102	28	11	15	43	1.83
58047715--58047761	19	2.5	19	86	3	69	46	8	19	25	1.77
58060718--58060792	31	2.5	29	75	14	80	42	9	8	40	1.66
58066831--58066881	23	2.2	23	78	0	57	50	0	1	47	1.12
58071815--58071869	27	2.0	27	100	0	110	40	14	14	30	1.86
58073517--58073574	31	1.9	31	82	3	73	22	10	8	58	1.58
58075438--58075486	21	2.3	21	79	6	55	40	4	8	46	1.52
58079666--58080344	205	3.3	204	89	5	975	40	18	13	28	1.88
58082210--58082319	55	2.0	55	100	0	220	45	10	18	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58085225--58085289	33	2.0	33	90	0	103	44	30	4	20	1.71
58087766--58087798	11	2.8	12	86	13	50	0	12	15	72	1.12
58091649--58091679	16	1.9	16	93	0	53	67	0	0	32	0.91
58092243--58092277	18	1.9	18	88	11	54	22	0	5	71	1.07
58110215--58110334	37	3.3	37	67	15	97	50	4	9	35	1.53
58111053--58111092	20	2.1	19	86	9	55	20	0	17	62	1.33
58125311--58125337	14	1.9	14	100	0	54	25	22	14	37	1.93
58126830--58126905	33	2.3	33	86	0	98	25	26	10	38	1.88
58127165--58127249	42	2.0	42	95	0	152	24	30	14	30	1.94
58127746--58127784	17	2.3	17	100	0	78	25	20	5	48	1.70
58131640--58131676	19	1.9	19	88	0	56	54	24	5	16	1.63
58134645--58134720	30	2.6	30	76	17	86	57	6	3	31	1.42
58141498--58141619	59	2.1	59	100	0	244	34	16	22	26	1.95
58144789--58144818	6	5.0	6	100	0	60	83	0	0	16	0.65
58149061--58149106	17	2.6	18	77	16	51	58	2	6	32	1.36
58150299--58150343	16	2.8	16	93	0	81	62	0	2	35	1.08
58150299--58150361	32	2.0	32	81	6	74	61	0	6	31	1.21
58150739--58150782	3	14.7	3	95	0	79	63	0	2	34	1.07
58155684--58155727	16	2.8	16	83	10	56	70	0	2	27	0.99
58175692--58175747	20	2.8	20	83	2	58	66	1	3	28	1.19
58175685--58175783	18	5.3	18	72	14	67	68	2	3	26	1.15
58182968--58183014	22	2.2	22	81	11	53	59	6	2	31	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58192633--58192842	102	2.1	102	97	0	393	21	24	10	43	1.84
58199231--58199255	5	5.0	5	100	0	50	40	0	0	60	0.97
58211495--58211555	31	2.0	31	90	0	95	27	22	16	32	1.96
58211991--58212035	4	11.2	4	100	0	90	48	26	0	24	1.51
58215584--58215635	11	5.0	10	76	6	50	61	0	1	36	1.07
58215585--58215635	21	2.4	21	80	6	59	62	0	1	35	1.06
58217536--58217596	30	2.0	30	100	0	122	36	6	37	19	1.78
58221496--58221547	24	2.2	24	89	0	77	55	9	1	32	1.43
58221668--58221746	38	2.1	38	97	0	149	29	29	21	20	1.98
58223501--58223552	24	2.2	24	89	0	77	55	9	1	32	1.43
58224777--58224803	14	1.9	14	100	0	54	51	11	0	37	1.37
58226588--58226721	45	2.8	45	91	6	196	43	17	11	27	1.83
58240048--58240259	56	3.8	52	78	12	183	25	23	18	32	1.97
58240154--58240817	103	6.2	104	73	13	370	21	21	18	38	1.94
58240625--58240794	62	2.9	61	80	8	181	22	18	21	37	1.94
58240520--58241201	59	11.9	59	73	10	230	24	20	19	35	1.95
58240716--58241125	175	2.4	167	78	7	437	26	19	20	33	1.96
58239993--58241242	53	22.6	57	72	12	434	24	20	19	35	1.95
58241159--58241317	50	3.1	48	71	19	142	18	22	18	40	1.92
58241224--58241341	50	2.4	50	78	2	121	17	26	23	32	1.97
58243297--58243544	56	4.5	56	75	4	216	37	20	21	20	1.94
58243286--58243541	112	2.3	108	80	5	282	39	18	21	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58245232--58245268	17	2.2	17	90	0	56	37	13	5	43	1.67
58245819--58245891	36	2.0	36	84	10	96	41	4	1	53	1.28
58248317--58248366	25	2.0	25	92	0	82	56	4	36	4	1.37
58251989--58252019	14	2.2	14	94	0	53	48	0	0	51	1.00
58268016--58268060	23	1.9	24	86	4	65	35	8	4	51	1.54
58274071--58274207	72	1.9	72	81	3	168	18	14	20	45	1.84
58274417--58274441	12	2.1	12	100	0	50	32	16	28	24	1.96
58295259--58295346	40	2.1	42	81	8	110	53	9	1	36	1.40
58295298--58295375	29	2.7	29	76	6	68	52	7	0	39	1.30
58298467--58298508	17	2.5	17	80	7	50	30	4	2	61	1.29
58320691--58320769	38	2.1	38	97	0	149	51	8	8	30	1.63
58326930--58326968	18	2.2	18	85	0	51	41	43	2	12	1.56
58331404--58331459	22	2.5	22	78	16	62	39	0	1	58	1.08
58331914--58331964	26	2.0	26	92	0	84	29	0	5	64	1.17
58331913--58331974	26	2.4	26	83	5	81	29	0	6	64	1.18
58335354--58335402	3	15.3	3	83	12	62	63	2	2	32	1.17
58336857--58336954	44	2.2	45	87	1	135	26	27	14	31	1.95
58337167--58337312	44	3.3	44	70	1	139	23	23	18	34	1.96
58337199--58337354	45	3.5	44	74	5	161	23	25	19	32	1.98
58337155--58337357	89	2.3	89	85	3	266	24	25	18	31	1.98
58337198--58337386	45	4.2	45	72	6	150	24	25	20	29	1.99
58341806--58341842	14	2.4	17	86	13	53	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58341991--58342041	14	3.6	14	74	7	50	68	0	13	17	1.21
58342030--58342063	16	2.1	16	88	5	50	76	5	14	2	1.09
58342807--58342852	25	1.9	23	86	8	65	34	0	17	47	1.48
58342935--58343011	27	3.1	25	78	14	70	38	0	24	36	1.56
58342935--58342992	23	2.5	24	80	11	66	39	0	24	36	1.55
58343155--58343250	39	2.5	39	80	6	108	20	23	28	27	1.99
58363075--58363108	16	2.1	16	88	0	50	50	14	17	17	1.79
58371651--58371675	13	1.9	13	100	0	50	36	0	8	56	1.29
58382151--58382286	41	3.2	42	75	19	138	35	2	0	61	1.17
58382189--58382224	18	2.0	18	88	0	54	38	0	0	61	0.96

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