genome.fa.s9.2.7.7.80.10.50.1000.144.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   254   255   256   
          257   258   259   

This is table  144  of  259  ( 31025 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)
46954348--46954375	12	2.3	12	100	0	56	28	42	21	7	1.79
46987779--46987805	9	3.0	9	100	0	54	22	0	22	55	1.44
46996894--46996940	19	2.5	19	85	0	67	57	0	0	42	0.98
46997281--46997320	19	2.1	19	90	9	64	20	2	2	75	1.04
46997300--46997353	26	2.1	26	85	0	72	31	3	3	61	1.31
46999047--46999078	16	2.0	16	93	0	55	34	0	0	65	0.93
47003305--47003351	25	1.9	26	87	12	73	46	0	0	53	1.00
47003768--47003792	3	8.3	3	100	0	50	68	0	0	32	0.90
47005989--47006026	20	1.9	20	88	0	58	36	31	13	18	1.89
47012514--47012556	21	2.0	21	100	0	86	37	0	9	53	1.33
47036401--47036827	216	2.0	215	97	0	809	43	13	15	26	1.85
47040186--47040458	49	5.6	49	74	8	189	23	26	21	28	1.99
47040230--47040460	98	2.4	98	83	5	315	22	26	22	28	1.99
47040504--47040626	46	2.7	46	84	5	142	26	28	17	26	1.98
47048168--47048395	49	4.7	48	73	10	169	22	27	22	28	1.99
47048165--47048395	98	2.4	98	85	2	338	22	27	22	28	1.99
47048473--47048583	46	2.4	46	86	0	150	24	28	18	27	1.98
47048950--47048990	22	1.9	22	90	5	66	19	21	43	14	1.87
47049359--47049391	13	2.5	13	100	0	66	33	39	21	6	1.78
47050094--47050315	46	4.8	47	74	13	176	22	29	19	27	1.98
47053833--47054077	45	5.4	45	76	6	190	34	15	20	30	1.93
47053833--47054039	89	2.3	89	81	5	224	35	14	19	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47055768--47055983	27	7.7	28	66	21	105	24	9	3	62	1.40
47055725--47055957	113	2.1	114	97	0	441	24	8	3	62	1.41
47055913--47056002	31	3.0	31	64	23	84	23	6	4	65	1.35
47055773--47056002	58	4.0	58	80	9	292	24	8	3	62	1.41
47055913--47056002	27	3.2	27	69	27	87	23	6	4	65	1.35
47056021--47056047	4	6.8	4	100	0	54	25	0	0	74	0.83
47056080--47056126	16	2.9	16	81	6	51	19	4	2	74	1.09
47056084--47056134	21	2.5	19	82	14	66	15	3	1	78	0.99
47056075--47056135	22	2.9	22	81	13	74	18	3	1	77	0.99
47058063--47058130	29	2.4	28	74	13	68	41	0	0	58	0.98
47068875--47069339	44	10.5	43	70	11	190	34	23	22	19	1.96
47068876--47069126	89	2.8	89	87	2	346	35	23	21	19	1.96
47069186--47069364	44	4.1	45	71	10	136	35	20	22	21	1.96
47071344--47071385	15	2.8	15	81	0	57	30	4	2	61	1.29
47073260--47073307	15	3.3	14	80	8	60	37	0	10	52	1.36
47074022--47074052	16	1.9	16	93	0	53	29	0	9	61	1.28
47077071--47077283	106	2.0	106	84	5	279	38	12	16	32	1.86
47078784--47078827	23	1.9	23	81	9	54	18	9	9	63	1.49
47079723--47079755	6	5.5	6	100	0	66	15	0	0	84	0.61
47093598--47093810	106	2.0	106	84	5	279	38	12	16	32	1.86
47095315--47095360	24	1.9	24	82	8	58	17	8	8	65	1.45
47096260--47096292	6	5.5	6	100	0	66	15	0	0	84	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47099584--47099638	24	2.3	24	75	6	58	25	3	45	25	1.70
47100525--47100567	13	3.1	14	84	12	54	60	0	0	39	0.97
47101448--47101493	17	2.7	17	86	0	65	50	13	6	30	1.66
47102091--47102122	15	2.0	17	88	11	50	62	6	0	31	1.20
47104069--47104540	74	6.1	74	70	11	304	33	18	15	31	1.92
47104069--47105240	164	7.4	151	77	13	948	33	18	16	31	1.93
47103889--47105245	238	5.7	238	84	8	1447	33	18	16	31	1.93
47104545--47105073	73	6.9	73	74	15	397	32	20	15	31	1.94
47104614--47104772	85	1.9	85	88	2	239	35	20	15	28	1.93
47104370--47105073	158	4.5	159	83	7	807	33	19	15	31	1.93
47104857--47105081	76	3.0	75	89	3	335	31	18	15	34	1.92
47105092--47105252	76	2.2	75	88	3	236	33	17	17	31	1.93
47104933--47105245	167	1.9	165	87	2	457	32	17	15	33	1.92
47116116--47116147	15	2.0	17	88	11	50	62	6	0	31	1.20
47116128--47116167	20	2.0	20	85	0	53	57	7	0	35	1.27
47116660--47116701	11	3.9	11	75	6	50	66	0	33	0	0.92
47119827--47119864	13	2.8	13	85	14	51	39	0	0	60	0.97
47122177--47122219	19	2.3	19	84	11	61	32	6	0	60	1.23
47123275--47123350	24	3.2	24	76	9	75	52	2	3	40	1.34
47123601--47123631	15	2.1	15	93	0	53	51	0	16	32	1.44
47127320--47127470	76	2.0	76	97	0	284	19	17	15	47	1.82
47128950--47128989	19	2.1	19	100	0	80	27	5	15	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47130242--47130280	20	2.0	20	84	0	51	12	12	23	51	1.74
47141663--47141737	22	3.3	23	71	23	61	56	0	4	40	1.18
47141717--47141827	35	3.1	38	71	19	96	61	0	1	36	1.07
47141687--47141785	16	5.6	16	71	24	58	56	0	3	40	1.15
47141663--47141820	24	6.7	23	70	17	85	59	0	3	37	1.13
47141721--47141804	30	2.9	30	72	22	81	59	0	1	39	1.05
47141663--47141829	61	2.9	58	78	13	141	59	0	2	37	1.13
47141780--47141835	17	2.9	19	75	22	55	64	0	3	32	1.11
47142060--47142104	21	2.1	22	83	4	56	46	15	4	33	1.66
47142087--47142157	17	4.0	19	80	12	80	38	12	8	40	1.74
47142108--47142162	18	3.1	18	89	5	94	38	14	10	36	1.81
47142107--47142159	17	3.0	18	88	5	90	35	15	11	37	1.83
47142432--47142721	73	3.8	79	76	20	291	22	21	21	34	1.96
47142670--47142910	110	2.2	112	85	10	329	29	19	17	33	1.95
47144125--47144164	6	6.8	6	88	11	57	0	12	0	87	0.54
47144124--47144167	23	2.0	22	95	4	79	0	11	0	88	0.51
47144125--47144167	15	2.9	15	86	3	61	0	11	0	88	0.52
47149658--47149717	17	3.5	17	74	21	63	65	0	1	33	1.03
47150197--47150329	18	7.5	18	86	5	182	36	12	10	39	1.78
47150197--47150338	35	4.0	35	93	2	221	37	13	9	39	1.78
47164879--47164908	14	2.1	14	93	0	51	16	0	36	46	1.47
47186489--47186548	30	2.0	30	90	0	93	30	25	5	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47187810--47187890	24	3.4	24	79	3	101	33	12	22	32	1.91
47192697--47192774	37	2.1	37	86	6	106	30	12	11	44	1.78
47198445--47198554	38	2.8	39	76	6	116	30	28	20	20	1.98
47199166--47199201	18	2.1	18	89	5	56	33	25	0	41	1.55
47199627--47199670	18	2.4	18	85	7	54	13	6	4	75	1.17
47199640--47199683	23	1.9	23	81	9	54	20	6	4	68	1.31
47199674--47199728	18	3.2	17	74	23	53	49	3	0	47	1.19
47200129--47200176	20	2.4	20	74	22	55	43	18	0	37	1.51
47213438--47213535	27	3.5	28	90	2	135	26	13	28	31	1.94
47213466--47213548	27	3.0	27	87	5	96	30	12	25	32	1.92
47213438--47213549	28	4.0	27	83	6	98	28	12	25	33	1.92
47215914--47215957	14	3.3	14	90	6	65	15	18	36	29	1.92
47220688--47220726	19	2.2	19	86	9	55	30	28	0	41	1.57
47225381--47225522	42	3.3	43	87	6	182	30	26	16	25	1.97
47225381--47225527	44	3.4	44	85	9	162	31	26	16	25	1.96
47228595--47228776	53	3.5	49	77	12	186	28	22	13	35	1.92
47228588--47228777	106	1.8	105	85	7	271	26	22	13	37	1.91
47228588--47228798	103	2.0	105	83	6	268	27	21	13	38	1.90
47228595--47228798	53	4.0	51	75	9	173	27	22	13	36	1.92
47238364--47238413	24	2.1	24	100	0	100	20	32	0	48	1.50
47243518--47243606	24	3.8	22	78	11	79	20	21	17	40	1.92
47248034--47248102	24	2.9	24	91	0	102	23	17	14	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47253081--47253179	45	2.2	45	90	1	153	41	22	10	26	1.85
47258436--47258762	27	12.1	27	75	7	166	39	21	9	29	1.85
47258428--47258614	54	3.5	53	78	6	189	39	22	9	28	1.85
47258510--47258746	54	4.4	52	76	8	188	40	20	9	30	1.84
47258487--47258777	81	3.6	80	76	9	270	39	20	8	30	1.83
47258542--47258777	54	4.4	54	76	7	196	40	20	9	29	1.84
47258767--47258981	27	8.0	27	86	0	286	34	20	20	24	1.96
47259184--47259253	25	2.8	25	91	0	104	28	25	21	24	1.99
47259472--47259554	31	2.7	31	92	3	143	31	16	24	27	1.97
47261918--47261986	27	2.6	27	85	0	93	21	23	21	33	1.97

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   254   255   256   
          257   258   259