genome.fa.s4.2.7.7.80.10.50.1000.178.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_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   

This is table  178  of  253  ( 30316 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)
58039786--58039883	26	3.8	26	93	0	160	36	21	8	33	1.83
58043245--58043340	12	8.4	12	72	17	55	54	3	2	40	1.28
58043247--58043299	20	2.8	19	79	20	67	54	1	1	41	1.22
58046293--58046426	55	2.4	55	88	4	191	30	16	6	46	1.73
58047534--58047603	35	2.0	35	97	0	131	27	5	24	42	1.77
58051495--58051534	19	2.0	20	95	4	73	35	5	10	50	1.58
58053781--58053821	21	2.0	20	85	4	55	58	0	0	41	0.98
58057011--58057050	18	2.1	18	86	9	53	50	5	2	42	1.37
58057008--58057054	20	2.3	21	75	20	55	51	4	2	42	1.33
58058518--58058566	25	2.0	25	100	0	98	48	8	14	28	1.72
58065737--58065808	29	2.5	29	97	0	135	22	25	27	25	2.00
58077419--58077783	48	7.7	46	72	9	234	27	20	26	25	1.99
58077411--58077685	96	2.9	95	84	2	345	28	20	26	25	1.99
58077470--58077783	142	2.2	143	80	6	352	27	20	26	25	1.99
58080334--58080507	49	3.6	48	75	8	165	27	22	27	23	2.00
58084800--58084915	43	2.7	43	78	0	124	32	27	13	25	1.94
58086672--58087001	138	2.4	138	88	1	455	35	20	20	23	1.96
58086672--58087001	69	4.8	69	87	0	410	35	20	20	23	1.96
58101303--58101338	18	1.9	19	94	5	65	19	0	2	77	0.88
58105177--58105500	162	2.0	162	93	0	549	42	21	12	23	1.87
58109059--58109099	22	1.9	22	85	5	57	41	7	7	43	1.60
58109704--58109746	20	2.2	20	87	8	61	55	2	2	39	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58109738--58109774	19	2.0	19	89	5	58	45	0	2	51	1.15
58116840--58116871	5	6.6	5	92	7	57	81	0	0	18	0.70
58117551--58117667	51	2.3	51	89	0	171	24	22	17	35	1.95
58122163--58122334	46	3.8	45	80	11	215	21	21	27	29	1.99
58122160--58122329	92	1.8	92	96	0	313	21	21	28	28	1.99
58129721--58129893	46	3.7	46	78	13	210	21	21	27	28	1.99
58129718--58129888	93	1.8	93	96	0	315	21	21	28	28	1.99
58146911--58146974	27	2.4	27	94	0	110	46	6	0	46	1.27
58146925--58146984	13	4.6	13	80	13	70	45	8	0	46	1.33
58150831--58150855	6	4.2	6	100	0	50	20	0	0	80	0.72
58152964--58153071	54	2.0	54	98	0	207	35	23	9	32	1.86
58156394--58156431	19	2.0	19	89	0	58	47	2	10	39	1.52
58159036--58159469	48	9.0	48	94	0	733	31	26	5	35	1.81
58163149--58163194	5	9.2	5	100	0	92	80	0	0	19	0.71
58168882--58168952	24	3.0	24	95	0	124	35	1	38	25	1.65
58168882--58168975	48	1.9	48	81	10	111	36	3	37	23	1.71
58170370--58170480	27	4.1	27	80	5	118	16	23	21	38	1.92
58170370--58170480	54	2.1	53	84	1	141	16	23	21	38	1.92
58175623--58175684	6	10.2	6	77	10	63	77	4	4	12	1.09
58175620--58175684	25	2.7	23	75	17	60	76	4	4	13	1.10
58187393--58187438	24	1.9	24	90	0	74	43	21	10	23	1.84
58188873--58189014	41	3.4	43	76	6	139	26	28	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58189246--58189329	42	2.0	42	100	0	168	40	21	16	21	1.91
58191670--58191931	46	5.6	46	72	12	162	28	17	29	24	1.97
58191672--58191939	140	1.9	141	83	6	348	28	17	29	24	1.98
58202016--58202107	27	3.4	27	92	1	141	38	22	23	15	1.92
58202016--58202125	27	4.1	27	87	3	116	37	23	21	17	1.94
58202016--58202125	54	2.1	53	82	5	132	37	23	21	17	1.94
58202230--58202305	27	2.9	27	82	9	77	30	14	21	34	1.93
58203301--58203332	16	2.0	16	93	0	55	53	6	34	6	1.51
58204121--58204304	38	4.8	38	88	1	251	19	20	27	33	1.96
58207685--58207757	38	1.9	38	94	0	128	32	27	5	34	1.80
58211544--58211573	14	2.2	14	94	5	53	33	6	20	40	1.78
58211557--58211598	19	2.2	20	95	4	77	26	9	14	50	1.73
58211678--58211722	20	2.4	19	85	7	56	46	4	0	48	1.22
58211683--58211722	20	2.0	20	90	0	62	50	2	0	47	1.14
58215387--58215420	12	2.8	12	95	4	59	17	8	8	64	1.47
58218808--58218834	14	1.9	14	100	0	54	44	14	11	29	1.80
58220785--58220899	45	2.6	45	83	5	144	43	13	13	28	1.83
58220785--58220943	45	3.5	44	79	5	140	40	15	16	27	1.88
58223241--58223288	21	2.3	21	88	0	69	41	14	2	41	1.57
58226236--58226307	36	2.0	36	91	0	117	38	6	18	36	1.77
58227586--58227692	53	2.0	53	100	0	214	26	16	25	31	1.97
58233077--58233124	24	2.0	24	100	0	96	29	4	29	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58237333--58237380	21	2.3	21	85	7	62	22	18	41	16	1.90
58242010--58242066	17	3.2	17	82	5	69	17	45	22	14	1.84
58248233--58248259	13	2.1	13	100	0	54	33	0	44	22	1.53
58248567--58248596	15	2.0	15	100	0	60	26	33	6	33	1.83
58250066--58250288	40	5.6	40	93	2	317	26	27	21	24	1.99
58250039--58250288	79	3.2	78	86	3	313	27	27	21	24	1.99
58258232--58258497	40	6.8	40	91	4	339	27	27	20	24	1.99
58258214--58258497	155	1.8	156	82	5	369	28	27	20	23	1.99
58268275--58268407	49	2.7	48	79	5	151	25	18	29	26	1.98
58270299--58270410	27	4.1	27	83	7	129	16	24	22	36	1.94
58270299--58270410	54	2.1	53	85	6	145	16	24	22	36	1.94
58273399--58273459	30	2.0	30	96	0	113	42	13	21	22	1.87
58275253--58275459	53	3.8	53	76	3	189	38	17	23	20	1.93
58279802--58280036	38	6.1	38	82	4	249	23	22	24	29	1.99
58279803--58280018	78	2.8	76	83	4	254	23	23	25	28	2.00
58279822--58280042	116	1.9	116	88	1	336	22	22	25	29	1.99
58280034--58280145	43	2.6	43	97	0	215	9	25	33	30	1.88
58284663--58284877	46	4.6	46	78	9	206	28	19	28	23	1.98
58298782--58298859	40	2.0	39	82	5	95	26	23	19	30	1.98
58301931--58301965	16	2.2	16	90	10	54	74	2	5	17	1.14
58307413--58307471	17	3.6	17	70	21	63	33	20	11	33	1.89
58307419--58307483	31	2.1	31	100	0	130	35	21	9	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58315596--58315654	29	2.0	29	96	0	109	23	3	15	57	1.53
58322229--58322319	28	3.1	29	81	9	114	68	0	27	4	1.09
58322229--58322316	6	15.5	6	71	15	62	68	0	27	4	1.09
58322240--58322310	11	6.8	10	77	15	56	69	0	28	2	1.03
58325954--58326031	34	2.3	34	80	4	86	43	16	6	33	1.74
58325954--58326034	17	4.8	17	76	3	65	43	17	6	33	1.74
58327030--58327105	31	2.5	31	85	4	93	46	7	3	42	1.51
58334868--58334925	30	1.9	30	85	0	80	20	13	6	58	1.58
58335174--58335326	12	14.0	11	68	17	79	33	1	1	62	1.14
58335174--58335326	47	3.2	47	78	16	149	33	1	1	62	1.14
58335244--58335307	25	2.6	26	76	20	75	34	4	0	60	1.17
58335176--58335326	24	6.3	24	75	14	127	33	1	1	62	1.14
58335173--58335325	23	7.7	20	66	26	78	33	1	1	63	1.14
58345329--58345458	40	3.3	39	84	5	172	23	19	27	29	1.98
58345276--58345458	40	4.6	40	80	9	171	24	20	27	28	1.99
58345276--58345455	79	2.3	80	82	10	210	23	20	27	27	1.99
58345310--58345495	79	2.4	79	79	8	191	26	19	26	27	1.99
58345357--58345505	40	3.7	39	82	7	131	25	21	28	24	1.99
58352256--58352386	40	3.3	40	85	2	183	23	19	29	28	1.98
58352283--58352433	40	3.8	39	81	6	126	25	21	29	24	1.99
58357315--58358095	90	8.7	90	87	0	1071	31	14	26	27	1.95
58357317--58358095	45	17.3	45	65	9	282	31	14	26	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58359523--58359573	27	2.0	27	84	7	70	35	1	1	60	1.19
58359518--58359575	29	2.2	26	82	14	73	31	1	1	65	1.13
58359608--58359758	12	13.0	11	68	13	72	32	2	1	62	1.20
58359640--58359764	23	5.9	20	71	17	76	33	3	0	62	1.17
58359606--58359677	23	2.9	25	75	17	71	30	0	2	66	1.06
58359608--58359705	34	2.8	33	79	17	94	32	1	2	64	1.12
58359643--58359764	48	2.6	48	78	10	137	33	3	0	62	1.17
58359622--58359757	25	5.3	26	74	20	92	31	2	2	63	1.21
58368568--58368638	6	13.8	5	76	19	51	15	1	4	78	0.97
58368575--58368638	11	5.4	11	77	22	67	15	1	4	78	1.00

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   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253