genome.fa.s19.2.7.7.80.10.50.1000.181.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  181  of  230  ( 27491 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)
54349355--54351512	769	2.8	766	86	2	2914	22	14	21	41	1.89
54351519--54356527	756	6.6	765	83	5	5760	23	14	20	41	1.89
54356920--54356953	12	2.9	12	91	4	52	0	23	0	76	0.79
54356779--54360439	808	4.8	749	79	10	3603	23	14	21	40	1.90
54358273--54358367	41	2.3	41	96	0	172	17	24	27	30	1.97
54358525--54360439	735	2.6	739	83	6	2281	23	13	22	40	1.89
54359969--54360007	12	3.2	12	88	0	51	5	15	2	76	1.06
54368910--54368943	12	2.8	12	90	0	50	0	23	0	76	0.79
54367080--54369519	759	3.2	761	87	2	3483	24	14	21	40	1.90
54367080--54369544	772	3.2	758	86	3	3393	23	14	21	40	1.90
54378110--54378264	43	3.7	41	77	13	163	23	18	28	29	1.98
54378110--54378264	84	1.8	84	84	10	210	23	18	28	29	1.98
54378425--54378456	16	1.9	17	93	6	57	40	0	21	37	1.54
54384995--54385045	21	2.4	21	80	0	57	35	9	25	29	1.88
54386542--54386575	16	2.1	17	88	5	52	44	0	11	44	1.40
54386743--54386816	38	1.9	38	97	0	139	32	1	20	45	1.59
54397865--54397897	17	1.9	17	100	0	66	45	6	0	48	1.27
54409031--54409060	6	5.0	6	100	0	60	50	0	16	33	1.46
54409551--54409597	23	2.0	23	95	0	85	48	14	4	31	1.63
54409636--54409705	32	2.2	32	89	0	104	41	21	11	25	1.86
54409686--54409799	19	5.9	19	72	3	75	46	21	3	28	1.68
54415885--54416129	89	2.7	89	88	4	325	24	5	12	57	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54416092--54416145	16	3.2	17	79	7	58	25	5	9	59	1.50
54416165--54416214	19	2.5	20	75	21	50	56	0	6	38	1.24
54419287--54419445	79	2.0	78	85	3	212	42	17	13	27	1.86
54421580--54421617	12	3.2	12	88	3	60	31	10	5	52	1.58
54421580--54421634	6	9.5	6	78	11	53	32	14	5	47	1.67
54421580--54421634	23	2.4	23	84	6	58	32	14	5	47	1.67
54423690--54423750	23	2.7	23	87	10	81	49	3	1	45	1.28
54423724--54423780	16	3.6	16	92	0	96	45	3	5	45	1.43
54423825--54424008	93	2.0	93	96	0	341	39	4	7	48	1.52
54424057--54424103	22	2.1	22	84	7	60	57	4	2	36	1.30
54424249--54424275	5	5.4	5	100	0	54	0	40	59	0	0.98
54425567--54425707	52	2.8	51	84	5	178	33	20	18	27	1.96
54427204--54427251	4	12.0	4	84	0	60	16	2	31	50	1.57
54427205--54427252	16	3.0	16	90	0	69	14	2	33	50	1.55
54430842--54430888	19	2.5	19	92	0	76	53	4	10	31	1.55
54432198--54432393	80	2.5	77	85	4	257	57	9	7	25	1.56
54432646--54432715	33	2.1	33	84	5	88	25	12	47	14	1.80
54439381--54439823	103	4.3	100	80	12	481	53	15	0	30	1.48
54439411--54439568	50	3.1	50	67	12	149	53	15	0	30	1.42
54439379--54439821	205	2.2	206	82	9	523	53	15	0	30	1.48
54439899--54440021	60	2.1	59	93	1	210	52	11	0	34	1.43
54440113--54440137	13	1.9	13	100	0	50	40	16	4	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54440145--54440186	3	14.3	3	95	5	77	0	30	0	69	0.89
54440388--54440443	27	2.1	27	86	0	76	17	35	28	17	1.93
54442153--54442339	41	4.6	40	90	7	263	33	2	0	64	1.08
54442258--54442339	31	2.7	31	83	11	89	35	2	0	62	1.09
54442280--54442339	31	2.0	30	90	9	95	36	1	0	61	1.06
54450394--54450445	11	4.7	11	79	9	52	25	30	1	42	1.66
54450390--54450445	22	2.6	22	78	15	64	25	28	1	44	1.64
54450407--54450504	51	1.9	51	89	4	153	26	25	2	45	1.64
54451412--54451455	21	2.1	21	88	12	65	45	0	4	50	1.22
54452134--54452200	29	2.3	31	79	10	77	29	40	17	11	1.86
54452284--54452326	18	2.4	18	84	7	52	18	23	9	48	1.76
54452875--54454127	21	58.9	21	84	4	1627	44	31	0	23	1.60
54452875--54454127	64	19.6	63	86	3	1627	44	31	0	23	1.60
54458629--54458681	22	2.6	21	85	11	67	41	1	9	47	1.47
54458651--54458689	19	2.0	20	85	5	53	38	0	10	51	1.36
54458679--54458724	23	2.1	23	88	8	69	58	0	0	41	0.98
54466232--54466597	43	8.5	43	85	1	446	27	30	18	23	1.98
54466976--54467123	66	2.2	66	87	2	208	16	25	17	40	1.90
54470605--54470654	9	6.0	9	77	17	54	32	0	20	48	1.50
54470607--54470665	16	3.7	16	88	0	91	30	1	18	49	1.58
54470906--54471053	69	2.1	69	89	0	233	43	6	6	43	1.55
54471637--54471693	26	2.2	26	93	0	96	43	3	14	38	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54473983--54474016	7	4.9	7	96	0	59	29	52	0	17	1.45
54474953--54475193	41	5.8	40	71	10	137	36	26	18	18	1.93
54474953--54475110	82	1.9	83	87	3	230	36	26	17	18	1.94
54477081--54477136	3	18.7	3	96	0	103	66	0	0	33	0.92
54483946--54483990	15	3.0	15	87	12	58	73	0	13	13	1.10
54483941--54483981	14	2.9	14	89	10	57	80	0	9	9	0.91
54485240--54485728	131	3.8	129	89	3	736	29	18	24	26	1.98
54485840--54486074	44	5.1	44	72	14	197	31	18	22	27	1.97
54485743--54486125	142	2.7	142	93	0	633	33	16	21	28	1.95
54485982--54486074	43	2.1	44	88	2	134	30	21	23	24	1.99
54486201--54486510	50	6.2	49	73	4	235	34	22	19	23	1.96
54486172--54486477	100	3.1	100	90	0	470	33	23	19	23	1.97
54489887--54489989	43	2.3	46	85	5	140	12	34	7	44	1.71
54489971--54490007	18	2.1	18	94	0	65	8	40	5	45	1.56
54494295--54494319	13	1.9	13	100	0	50	56	4	0	40	1.18
54494321--54494387	35	1.9	35	93	0	116	44	11	5	37	1.66
54494408--54494493	36	2.4	36	88	0	127	46	16	2	34	1.60
54496120--54496219	49	2.0	49	90	3	157	22	8	32	38	1.83
54505322--54505364	13	3.1	14	84	12	54	60	0	0	39	0.97
54508156--54508188	16	2.1	16	94	0	57	60	0	0	39	0.97
54511490--54511529	21	2.0	21	85	5	55	37	12	7	42	1.71
54514219--54514321	34	3.0	34	81	8	95	43	18	7	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54514231--54514321	17	5.4	17	79	7	78	45	19	6	28	1.76
54514273--54514334	17	3.7	16	80	4	52	45	24	4	25	1.73
54514265--54514334	34	2.1	34	83	5	88	45	22	5	25	1.74
54515295--54515360	35	1.9	33	82	11	80	48	13	3	34	1.58
54518105--54518138	5	7.0	5	86	6	52	79	2	17	0	0.86
54518105--54518138	14	2.3	15	90	5	52	79	2	17	0	0.86
54519514--54519908	197	2.0	196	97	0	745	25	17	18	38	1.92
54520418--54520513	42	2.3	42	81	0	111	23	22	30	22	1.99
54530946--54531090	68	2.1	69	83	6	179	53	3	4	38	1.39
54540385--54540421	9	4.1	9	92	0	65	45	13	10	29	1.77
54540457--54540499	21	2.0	21	82	8	52	20	34	0	44	1.52
54540635--54540694	30	2.0	31	83	9	79	20	38	0	41	1.52
54540949--54540977	9	3.2	9	100	0	58	31	0	0	68	0.89
54547775--54547823	11	4.5	11	85	7	64	22	28	0	48	1.50
54547775--54547823	23	2.2	22	82	10	64	22	28	0	48	1.50
54550104--54550420	49	6.5	49	95	0	553	43	3	9	44	1.52
54553626--54554037	125	3.3	124	91	0	644	29	19	17	33	1.95
54561215--54561273	31	1.9	31	92	0	100	47	6	5	40	1.52
54564476--54564538	32	2.0	32	84	6	83	23	9	4	61	1.45
54565113--54565172	29	2.0	29	83	9	75	41	8	13	36	1.74
54566864--54566906	12	3.8	12	81	12	63	23	0	2	74	0.93
54566862--54566907	22	2.1	22	100	0	92	21	0	6	71	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54572857--54572885	13	2.2	13	100	0	58	27	6	17	48	1.72
54588825--54589002	27	6.6	27	84	3	205	29	28	15	26	1.96
54588846--54589001	82	1.9	81	88	3	233	29	28	15	26	1.96
54596716--54596837	38	3.2	38	86	3	158	13	22	31	32	1.93
54596814--54596919	41	2.6	41	80	0	104	18	17	24	38	1.93
54598399--54598437	18	2.1	19	90	4	62	53	7	5	33	1.51
54598850--54598960	37	3.0	36	78	11	102	40	3	4	51	1.40
54604172--54604197	9	2.9	9	100	0	52	34	0	34	30	1.58
54608534--54608574	20	2.0	20	85	4	55	26	4	0	68	1.10
54624638--54624833	97	2.0	98	92	1	331	37	24	9	28	1.87

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