genome.fa.s4.2.7.7.80.10.50.1000.41.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  41  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)
10570142--10570197	23	2.4	24	88	8	89	76	0	0	23	0.78
10570142--10570199	5	11.4	5	80	14	57	77	0	0	22	0.77
10572971--10573233	39	6.7	40	88	5	349	25	28	22	23	1.99
10580997--10581258	39	6.7	40	87	6	340	26	27	21	24	1.99
10587056--10587089	17	1.9	18	94	5	61	58	5	8	26	1.51
10587810--10587865	10	5.6	10	87	8	71	67	1	7	23	1.24
10590285--10590320	18	2.0	18	94	0	63	47	0	5	47	1.25
10590587--10590639	21	2.5	21	93	0	88	32	39	7	20	1.81
10590754--10590823	29	2.3	30	85	7	88	38	5	8	47	1.58
10592379--10592466	3	29.3	3	71	21	53	28	3	1	67	1.14
10592378--10592459	12	7.0	12	73	14	64	26	3	1	68	1.14
10592718--10592782	22	2.9	23	72	4	60	24	1	4	69	1.16
10602892--10603062	46	3.7	46	76	13	179	31	28	18	22	1.97
10602897--10603067	93	1.8	93	94	0	306	30	28	18	21	1.97
10605413--10605492	30	2.7	30	81	11	92	56	13	17	12	1.68
10605413--10605485	15	4.9	14	73	17	67	56	13	17	12	1.68
10608435--10608602	45	3.7	44	75	15	173	29	28	19	22	1.98
10611006--10611100	43	2.2	44	86	1	129	27	23	25	24	2.00
10611376--10611488	43	2.6	44	76	6	122	38	19	15	25	1.92
10611461--10611580	44	2.8	44	76	7	138	35	22	22	20	1.96
10612011--10612035	12	2.1	12	100	0	50	40	36	8	16	1.77
10612101--10612160	13	4.7	13	68	4	50	15	50	15	20	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10612080--10612168	38	2.3	38	98	0	169	17	51	11	19	1.75
10612706--10612790	9	9.0	9	73	15	57	28	3	1	67	1.15
10612716--10612790	3	24.3	3	72	20	50	30	4	1	64	1.20
10612708--10612783	12	6.4	12	73	13	59	27	3	1	67	1.17
10612715--10612794	18	4.4	18	74	16	67	31	3	1	63	1.20
10612865--10612918	3	17.0	3	85	11	56	31	0	5	62	1.18
10617570--10617705	3	45.3	3	69	19	70	64	6	3	25	1.34
10617575--10617705	15	8.7	15	72	12	83	64	6	3	24	1.35
10617570--10617711	24	5.8	24	71	12	101	64	6	3	25	1.33
10619402--10619851	177	2.6	177	89	2	656	26	23	20	29	1.99
10624507--10624548	20	2.1	20	95	0	75	45	9	16	28	1.79
10628083--10628121	20	2.0	19	85	5	51	41	12	25	20	1.88
10631938--10631994	28	2.0	29	83	10	73	64	0	8	26	1.22
10632043--10632081	17	2.3	17	86	0	51	58	2	7	30	1.39
10632097--10632205	3	36.3	3	72	14	82	63	5	4	26	1.36
10641544--10641587	20	2.3	19	84	11	54	50	2	2	45	1.27
10643245--10643420	48	3.7	48	81	6	173	25	31	16	26	1.96
10647232--10647265	17	2.0	17	88	11	52	32	0	5	61	1.20
10649350--10649489	39	3.5	39	86	2	165	27	27	25	20	1.99
10652229--10652312	28	3.0	27	84	8	96	20	4	29	45	1.71
10652256--10652350	23	3.9	22	70	20	57	17	5	31	45	1.71
10652414--10652473	18	3.4	18	77	9	79	38	0	16	45	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10652410--10652481	34	2.1	34	97	2	137	43	0	13	43	1.44
10658306--10658351	21	2.2	20	84	3	56	0	28	6	65	1.17
10658361--10658403	19	2.3	19	84	11	61	11	11	0	76	1.02
10658402--10658439	8	4.8	8	83	9	51	39	2	0	57	1.12
10662933--10663097	48	3.5	47	79	9	151	24	29	18	27	1.98
10663023--10663236	46	4.6	46	76	9	186	24	28	19	27	1.99
10670478--10670520	19	2.2	20	87	4	61	34	11	18	34	1.87
10670567--10670675	25	4.4	24	89	5	148	28	22	22	26	1.99
10670567--10670689	25	5.0	24	86	8	101	27	22	22	26	1.99
10670881--10670967	32	2.8	31	91	5	149	32	17	26	24	1.97
10678428--10678481	11	5.4	10	78	12	58	35	11	18	35	1.86
10678528--10678655	25	5.2	24	88	5	152	30	23	21	24	1.99
10678590--10678674	24	3.5	24	87	9	102	29	22	23	24	1.99
10678866--10678952	32	2.8	30	83	11	113	33	14	25	26	1.95
10683108--10683362	126	2.0	126	91	3	415	39	18	18	24	1.92
10691347--10691400	25	2.2	25	93	3	92	31	3	29	35	1.75
10692776--10692999	40	5.6	40	91	2	319	25	28	22	23	1.99
10701048--10701250	40	5.4	39	84	12	234	26	28	22	23	1.99
10701075--10701247	70	2.3	75	83	11	214	27	28	20	22	1.99
10704299--10704501	79	2.6	79	82	7	243	25	28	21	24	1.99
10704283--10704503	39	5.7	40	83	7	242	26	28	21	24	1.99
10743339--10743500	40	4.0	40	80	15	172	29	27	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10751433--10751654	118	1.9	119	84	6	299	25	27	22	24	2.00
10751431--10751654	40	5.7	40	85	7	287	25	27	22	24	2.00
10755591--10755775	100	1.9	100	92	0	316	40	9	20	29	1.83
10756224--10756316	46	2.0	46	97	2	179	31	6	2	60	1.34
10756338--10756375	15	2.4	16	86	4	51	52	0	2	44	1.14
10756960--10757003	7	6.6	7	86	5	56	47	0	11	40	1.39
10765636--10766044	47	8.6	47	93	2	674	29	29	8	32	1.87
10765636--10766044	96	4.3	94	93	3	674	29	29	8	32	1.87
10765636--10766044	143	2.9	143	94	1	696	29	29	8	32	1.87
10775611--10775651	21	2.0	21	90	0	64	19	29	21	29	1.98
10782427--10782470	18	2.4	18	88	7	63	18	0	0	81	0.68
10782438--10782470	6	5.5	6	100	0	66	15	0	0	84	0.61
10786994--10787146	28	5.5	28	97	0	272	26	11	28	33	1.91
10786966--10787146	56	3.2	56	91	3	276	26	12	27	33	1.92
10788692--10788823	50	2.6	52	80	4	153	34	25	15	25	1.95
10793714--10793791	39	2.0	39	100	0	156	41	17	7	33	1.79
10805883--10805917	12	2.9	12	91	0	61	25	28	0	45	1.54
10808705--10808844	67	2.1	67	100	0	280	48	12	2	35	1.56
10809553--10809587	7	5.0	7	92	0	52	28	0	51	20	1.47
10810046--10810109	30	2.1	31	97	2	121	37	3	0	59	1.13
10832583--10832613	10	3.1	10	100	0	62	38	41	9	9	1.71
10836570--10836687	39	3.0	39	87	0	155	23	27	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10843906--10844008	52	2.0	52	92	0	170	32	6	19	41	1.78
10847233--10847304	18	4.0	17	73	22	58	36	16	5	41	1.72
10854831--10854981	28	5.4	28	91	1	214	33	27	11	26	1.92
10862892--10863042	28	5.4	28	91	1	214	33	27	11	26	1.92
10865846--10865917	18	4.0	17	75	22	67	36	18	5	40	1.74
10888417--10888703	29	9.9	29	82	3	281	39	11	26	21	1.88
10890110--10890175	29	2.2	30	82	12	75	37	0	3	59	1.13
10890153--10890177	8	3.1	8	100	0	50	24	0	0	76	0.80
10890778--10890887	26	4.2	26	97	0	184	33	5	24	36	1.79
10894800--10894866	33	2.0	33	97	0	125	43	5	20	29	1.76
10895892--10895951	31	1.9	31	96	0	111	40	13	15	31	1.85
10898620--10898701	43	1.9	42	82	7	103	56	12	12	19	1.67
10900482--10900518	20	1.9	19	89	10	58	40	0	27	32	1.57
10906598--10906672	37	2.0	37	100	0	150	41	18	8	32	1.80
10909164--10909252	36	2.5	36	88	0	133	20	10	28	41	1.84
10911741--10911767	13	2.1	13	100	0	54	37	29	14	18	1.91
10920947--10921012	28	2.3	28	79	7	71	10	13	10	65	1.48
10925802--10925853	22	2.3	22	86	3	68	59	5	9	25	1.51
10926880--10927400	132	4.0	132	82	4	579	35	18	18	27	1.94
10926884--10927399	264	2.0	264	82	3	646	35	18	18	27	1.94
10931778--10931884	55	1.9	55	86	3	153	31	14	13	40	1.85
10932164--10932194	16	1.9	16	93	0	53	70	3	0	25	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10934036--10934061	3	8.7	3	100	0	52	30	0	0	69	0.89
10934258--10934310	26	2.0	27	81	3	63	45	5	1	47	1.37
10934713--10934749	2	18.5	2	100	0	74	0	48	0	51	1.00
10942245--10942285	18	2.3	18	87	4	57	46	0	0	53	1.00
10943823--10943985	42	3.7	42	82	9	166	29	25	14	30	1.95
10943891--10944028	50	2.9	48	84	6	163	30	26	13	30	1.93
10943906--10944079	47	3.7	46	84	4	168	29	26	14	28	1.95
10944097--10944245	31	4.8	31	88	3	228	26	27	18	26	1.98
10944221--10944397	50	3.5	50	88	0	264	27	22	15	35	1.94
10945588--10945816	105	2.2	105	96	0	415	38	22	4	34	1.75

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