genome.fa.s25.2.7.7.80.10.50.1000.187.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  187  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)
55139323--55139431	48	2.3	48	84	9	134	73	0	25	0	0.89
55139368--55139438	20	3.2	22	76	15	76	77	0	19	2	0.89
55139539--55139578	14	2.9	13	88	7	53	77	7	15	0	0.98
55139549--55139584	14	2.6	14	91	4	56	75	5	19	0	1.00
55139728--55139762	15	2.3	15	90	9	54	88	0	11	0	0.51
55140319--55140367	16	3.0	16	80	16	64	32	14	12	40	1.83
55140366--55140403	19	2.0	20	94	5	69	42	13	10	34	1.78
55140395--55140448	1	54.0	1	81	0	63	90	0	0	9	0.45
55140395--55140446	9	5.9	9	86	13	81	90	0	0	9	0.46
55140513--55140947	18	25.0	18	69	16	204	30	13	11	44	1.79
55140513--55140947	17	25.0	17	70	14	192	30	13	11	44	1.79
55140513--55140656	55	2.7	53	80	3	171	29	13	12	45	1.80
55140526--55140667	73	1.9	73	81	8	173	30	14	12	42	1.82
55140757--55140930	91	1.9	89	86	4	242	31	12	11	44	1.78
55152697--55153213	125	4.3	121	83	8	655	29	14	20	35	1.92
55152927--55153141	53	3.9	53	75	11	218	28	13	20	37	1.91
55152697--55153213	237	2.1	241	91	5	834	29	14	20	35	1.92
55153092--55153689	70	8.7	69	84	12	708	29	16	20	33	1.94
55153644--55153865	85	2.5	87	80	11	238	26	17	19	36	1.94
55153808--55154033	54	4.1	54	79	9	249	30	15	17	36	1.91
55153829--55153980	58	2.7	55	84	5	189	32	15	18	33	1.92
55153829--55154033	112	1.8	112	89	6	326	32	15	18	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55154280--55154315	15	2.3	15	95	4	63	75	0	0	25	0.81
55154321--55154413	29	3.2	30	79	8	102	27	25	3	43	1.70
55154942--55155005	13	5.0	12	83	14	51	71	0	28	0	0.86
55154947--55155038	12	7.5	13	72	17	72	72	0	26	1	0.91
55154937--55155042	35	3.0	35	78	13	110	71	0	27	0	0.92
55154958--55155042	24	3.7	24	77	16	83	74	0	24	1	0.89
55269878--55269942	20	3.3	20	78	4	78	63	3	1	32	1.19
55269883--55269956	28	2.6	28	78	6	87	59	4	1	35	1.25
55271301--55271355	24	2.3	24	90	0	83	27	3	5	63	1.33
55271541--55271575	7	4.9	7	96	3	61	40	17	28	14	1.88
55272343--55272367	3	8.3	3	100	0	50	32	32	0	36	1.58
55272691--55272716	12	2.2	12	100	0	52	0	7	7	84	0.77
55281994--55282021	6	4.7	6	100	0	56	50	0	14	35	1.43
55302266--55302579	160	2.0	157	94	1	556	32	13	17	36	1.89
55308631--55308687	29	1.9	30	86	10	82	40	5	0	54	1.23
55308635--55308678	21	2.1	21	84	16	56	43	6	0	50	1.29
55308658--55308696	18	2.1	19	86	13	55	43	5	0	51	1.24
55308650--55308699	18	2.5	21	72	27	54	46	4	0	50	1.20
55315755--55315783	8	3.6	8	100	0	58	24	0	0	75	0.80
55319615--55319673	30	2.0	30	83	6	75	44	16	1	37	1.59
55320670--55320741	25	3.0	25	79	4	85	33	22	23	20	1.97
55320971--55321038	24	2.8	25	78	13	77	33	17	27	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55321228--55321275	25	1.9	25	86	0	69	39	18	14	27	1.90
55320824--55321638	410	2.0	410	93	0	1382	35	19	17	27	1.95
55327146--55327250	52	2.0	52	94	3	185	21	1	33	42	1.64
55345056--55345113	22	2.6	24	76	15	61	32	15	10	41	1.81
55346200--55346248	23	2.1	24	81	11	57	38	4	0	57	1.18
55364434--55364488	27	2.0	27	83	13	69	25	20	10	43	1.84
55367057--55367095	20	2.0	19	90	5	60	30	0	2	66	1.05
55379474--55379510	17	2.2	16	90	4	56	43	0	0	56	0.99
55384698--55385260	50	11.3	50	68	6	307	25	23	20	31	1.98
55384724--55385311	100	5.9	100	91	0	872	25	23	20	30	1.98
55393384--55393423	20	2.0	20	90	0	62	32	15	20	32	1.93
55401042--55401086	22	2.0	22	82	0	54	22	13	8	55	1.65
55407472--55407558	40	2.2	40	81	8	106	31	6	20	41	1.79
55407764--55407840	33	2.3	33	90	0	118	19	18	20	41	1.90
55407797--55407986	45	4.2	46	85	4	228	21	19	18	40	1.91
55407809--55407983	89	2.0	90	84	1	235	21	19	18	40	1.92
55407964--55408004	18	2.2	19	86	4	57	24	21	9	43	1.83
55409559--55409601	20	2.2	20	87	8	61	46	0	2	51	1.13
55409553--55409612	20	2.9	20	75	5	57	50	0	1	48	1.11
55417591--55417624	17	1.9	18	94	5	61	79	5	2	11	1.02
55419048--55419083	15	2.5	14	86	8	54	44	8	0	47	1.33
55422556--55422582	13	2.1	13	100	0	54	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55427101--55427168	25	2.6	25	84	9	75	1	26	4	67	1.18
55427188--55427259	8	9.4	8	79	11	71	51	1	1	45	1.18
55427188--55427262	16	4.9	15	75	15	82	52	1	1	45	1.17
55429971--55430026	14	4.2	15	68	27	54	53	0	0	46	1.00
55430078--55430128	26	2.0	26	88	3	77	56	5	1	35	1.35
55443598--55443691	46	2.0	46	97	0	179	35	29	15	19	1.93
55447005--55447052	12	3.9	12	72	5	51	16	6	14	62	1.51
55452980--55453004	6	4.2	6	100	0	50	32	0	36	32	1.58
55455549--55455573	13	1.9	13	100	0	50	48	0	0	52	1.00
55474562--55474587	6	4.3	6	100	0	52	15	0	0	84	0.62
55474593--55474894	44	6.9	44	62	14	129	26	25	27	21	1.99
55474593--55474906	88	3.6	88	90	0	493	25	25	26	22	2.00
55474919--55475632	128	5.6	128	89	1	970	30	20	24	24	1.98
55477508--55477552	20	2.1	22	92	8	76	46	0	0	53	1.00
55500762--55500914	45	3.4	45	90	0	234	41	20	18	18	1.91
55500768--55500941	45	4.2	39	84	9	154	39	21	20	19	1.93
55501116--55501203	40	2.2	40	84	9	110	37	18	7	36	1.80
55501915--55501940	11	2.4	11	100	0	52	0	42	7	50	1.31
55514326--55514380	20	2.7	21	80	8	69	29	9	16	45	1.78
55516989--55517023	2	17.5	2	87	0	52	45	2	0	51	1.16
55539011--55539056	23	2.0	23	100	0	92	39	8	0	52	1.33
55539123--55539190	27	2.5	29	88	9	99	22	29	29	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55539312--55539350	19	2.0	21	85	10	55	23	0	10	66	1.22
55539412--55539440	15	1.9	15	100	0	58	6	0	24	68	1.13
55544035--55544101	31	2.3	31	82	14	88	0	31	0	68	0.90
55544029--55544227	39	5.2	39	77	10	155	0	31	0	68	0.90
55544073--55544198	21	6.4	19	73	21	100	0	29	0	70	0.87
55544095--55544228	4	32.0	4	75	19	96	0	31	0	68	0.90
55544076--55544237	54	3.0	55	73	22	153	0	33	0	66	0.92
55544030--55544198	44	4.0	44	77	10	138	0	30	0	69	0.88
55544028--55544227	78	2.7	76	84	9	268	0	32	0	68	0.90
55544064--55544187	18	6.6	18	70	18	83	0	29	0	70	0.88
55544088--55544229	70	2.1	66	80	13	164	0	32	0	67	0.91
55544095--55544200	18	5.6	18	73	22	83	0	29	0	70	0.87
55544086--55544228	40	3.5	42	76	18	108	0	32	0	67	0.91
55544269--55544347	27	2.9	27	88	0	113	16	29	27	26	1.97
55548184--55548423	96	2.5	97	89	3	369	39	18	2	40	1.62
55548592--55548672	40	2.0	41	85	4	110	23	24	25	25	2.00
55548890--55548948	18	3.1	19	73	9	57	49	3	0	47	1.18
55548886--55548951	19	3.6	18	76	11	55	53	3	0	43	1.16
55548970--55549022	27	2.0	27	81	7	63	66	5	0	28	1.15
55551074--55551136	27	2.4	27	86	2	92	39	9	1	49	1.45
55551805--55551912	18	5.8	18	73	8	92	39	11	0	48	1.45
55551797--55551889	37	2.5	37	96	0	177	37	12	1	48	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55551903--55551935	16	2.1	16	100	0	66	36	0	0	63	0.95
55551903--55551937	5	6.8	5	93	6	61	40	0	0	60	0.97
55551968--55552006	20	2.0	20	84	0	51	41	2	12	43	1.56
55552807--55552858	27	1.9	27	92	0	86	15	32	21	30	1.94
55552809--55552867	27	2.2	27	81	0	64	16	28	25	28	1.97
55552920--55552981	28	2.2	28	91	2	99	54	0	4	40	1.22
55573881--55574060	83	2.2	83	79	9	181	51	6	2	40	1.39
55574359--55574399	13	3.1	13	86	13	57	41	2	9	46	1.50
55576192--55576221	13	2.3	13	94	0	51	40	40	0	20	1.52
55576362--55576429	9	7.4	9	83	9	93	22	10	27	39	1.86

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