genome.fa.s20.2.7.7.80.10.50.1000.9.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  9  of  199  ( 23844 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)
2914133--2914163	11	2.8	11	95	0	53	67	3	0	29	1.06
2915467--2915920	151	3.0	148	85	8	630	52	8	8	31	1.61
2922522--2922793	135	2.0	135	99	0	535	35	23	15	25	1.94
2923644--2923805	39	4.2	39	84	4	211	21	27	25	24	1.99
2923641--2923805	78	2.1	78	89	2	251	21	28	25	24	1.99
2926058--2926673	205	3.0	205	97	0	1151	38	17	15	28	1.90
2934032--2934071	17	2.3	18	86	4	55	37	0	2	60	1.11
2934967--2935002	17	2.1	17	100	0	72	52	11	5	30	1.59
2937415--2937487	23	3.2	23	88	0	119	24	21	23	30	1.99
2939163--2939264	49	2.1	49	98	0	195	51	12	9	25	1.70
2945441--2945811	104	3.6	104	88	5	536	31	29	19	19	1.97
2946143--2946200	30	1.9	30	85	0	80	31	22	6	39	1.80
2947016--2947117	42	2.4	42	91	0	168	45	15	21	17	1.86
2947053--2947119	21	3.2	21	66	8	55	46	17	19	16	1.85
2947209--2947256	24	2.0	24	100	0	96	16	29	12	41	1.85
2947315--2947402	45	1.9	46	86	2	124	44	13	1	40	1.51
2949173--2949251	32	2.8	28	75	17	81	56	5	0	37	1.21
2949180--2949260	31	2.6	32	81	13	96	59	3	0	37	1.15
2951203--2951241	19	2.1	19	85	4	53	51	12	0	35	1.40
2953716--2953759	11	3.9	11	85	11	54	79	4	0	15	0.89
2953727--2953752	6	4.3	6	100	0	52	84	0	0	15	0.62
2966797--2966823	2	13.5	2	100	0	54	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2971968--2972034	34	2.0	34	96	0	125	47	17	22	11	1.80
2973826--2973893	28	2.4	27	79	11	75	58	16	11	13	1.62
2973789--2973899	28	3.9	28	69	16	66	53	14	13	18	1.73
2975577--2975637	30	2.0	30	93	0	104	24	8	26	40	1.83
2979485--2979523	10	3.8	10	86	3	51	48	0	2	48	1.15
2982990--2983068	36	2.1	38	83	4	99	53	1	6	39	1.35
2984037--2984084	22	2.2	21	88	3	69	56	0	2	41	1.11
2986279--2986406	21	6.1	21	70	11	75	20	17	15	46	1.83
2986339--2986427	42	2.1	42	81	8	101	16	15	16	50	1.78
2986349--2986448	42	2.4	43	85	6	125	16	19	18	47	1.84
2986366--2986442	21	3.7	21	70	6	66	16	18	18	46	1.84
2986375--2986461	42	2.1	42	84	0	111	16	19	18	45	1.85
2994251--2994288	11	3.5	11	88	0	58	55	5	39	0	1.23
2994937--2994965	13	2.1	14	93	6	51	34	0	0	65	0.93
2994993--2995023	5	6.2	5	92	0	53	77	0	3	19	0.90
2995311--2995390	25	3.2	25	89	3	108	16	22	22	38	1.92
2995372--2995417	22	2.1	22	87	0	65	13	23	19	43	1.86
2995851--2996201	175	2.0	175	96	0	648	35	10	17	37	1.84
2996741--2996790	25	1.9	26	84	8	66	34	0	14	52	1.42
3010036--3010078	24	1.9	21	86	13	59	39	2	2	55	1.25
3029328--3029357	2	15.5	2	93	6	53	50	0	0	50	1.00
3036577--3036606	5	6.0	5	92	0	51	40	56	0	3	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3045431--3045530	52	1.9	52	82	8	123	47	5	6	42	1.50
3045528--3045567	20	2.0	20	85	9	55	47	2	20	30	1.63
3045625--3045650	13	2.0	13	100	0	52	53	15	15	15	1.73
3050301--3050340	15	2.7	15	85	11	55	65	5	0	30	1.14
3050306--3050342	15	2.4	16	95	4	67	67	5	0	27	1.12
3050910--3050944	18	1.9	18	88	11	54	40	0	0	60	0.97
3069758--3069837	26	3.2	25	72	16	76	45	3	2	48	1.33
3070022--3070066	16	2.8	16	80	6	56	24	24	8	42	1.83
3076969--3077157	94	2.0	95	90	1	299	44	16	24	13	1.84
3077493--3077550	29	2.0	29	100	0	116	41	17	13	27	1.87
3080638--3080680	21	2.0	21	86	4	59	69	0	11	18	1.17
3082861--3083268	199	2.1	199	85	2	543	27	22	21	28	1.99
3088477--3088527	26	2.0	26	84	7	68	37	23	17	21	1.94
3088489--3088551	26	2.5	26	80	12	60	36	23	17	22	1.95
3088602--3088668	25	2.7	25	86	2	91	38	19	26	14	1.91
3089009--3089075	11	6.4	10	77	8	53	43	16	1	38	1.57
3089009--3089080	21	3.4	21	86	3	92	43	18	1	37	1.59
3096462--3096573	59	1.9	59	98	0	215	47	8	8	35	1.64
3096521--3096747	105	2.2	103	87	9	318	39	14	15	30	1.87
3096986--3097319	105	3.2	102	84	8	455	27	16	12	43	1.84
3100711--3100762	25	2.1	25	100	0	104	34	15	19	30	1.93
3110450--3110574	62	2.0	62	100	0	250	33	16	16	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3116134--3116185	24	2.2	24	85	0	68	53	9	3	32	1.51
3122317--3122440	61	2.0	62	81	7	146	45	5	9	39	1.61
3129767--3129865	42	2.3	43	89	1	146	23	33	19	24	1.97
3130765--3131059	111	2.6	111	82	7	330	39	23	6	30	1.81
3130820--3131050	91	2.6	88	92	4	367	39	23	6	30	1.79
3130760--3131059	23	13.3	23	71	15	182	39	23	7	30	1.81
3131395--3131478	39	2.1	39	86	4	114	51	7	11	29	1.65
3133428--3133788	146	2.5	142	87	3	508	27	16	11	45	1.81
3133702--3133885	98	1.9	97	89	1	287	29	16	11	42	1.83
3133556--3134312	244	3.0	244	84	8	877	26	17	12	43	1.85
3133800--3135095	146	9.0	146	91	3	2050	26	17	13	42	1.86
3133800--3135095	291	4.5	292	92	2	2102	26	17	13	42	1.86
3135496--3135541	22	2.1	22	84	8	58	41	36	0	21	1.54
3135531--3135606	21	3.6	21	72	12	66	39	30	0	30	1.57
3135546--3135600	14	3.9	14	78	4	56	38	32	0	29	1.58
3135814--3135844	15	2.1	15	93	0	53	35	45	0	19	1.51
3135540--3136197	245	2.7	245	94	2	1115	42	25	2	30	1.67
3136027--3136079	21	2.5	21	76	14	54	37	35	0	26	1.57
3136027--3136097	15	4.9	15	77	6	56	36	39	0	23	1.55
3136389--3136560	73	2.4	72	88	1	254	23	25	24	27	2.00
3145936--3145972	12	3.0	13	84	11	51	29	40	18	10	1.85
3148635--3148678	22	2.0	22	91	8	72	31	6	0	61	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155961--3156067	54	2.0	51	89	5	160	16	28	14	41	1.87
3158904--3158941	20	1.9	20	84	10	51	10	13	0	76	1.02
3160986--3161051	20	3.2	20	71	23	64	40	9	1	48	1.44
3160980--3161064	42	2.0	42	95	0	152	42	9	2	45	1.49
3170268--3170322	26	2.2	26	83	3	67	60	3	7	29	1.41
3172084--3172157	17	4.3	18	71	20	68	25	0	2	71	0.99
3173318--3173413	29	3.2	28	77	16	95	42	14	11	31	1.81
3178506--3178576	28	2.4	31	74	6	76	71	8	2	16	1.22
3183082--3183213	39	3.4	39	81	11	171	34	3	0	62	1.11
3183120--3183192	9	8.0	9	75	18	71	35	1	0	63	1.04
3183097--3183201	11	10.4	11	72	23	56	36	3	0	60	1.15
3183184--3183223	21	1.9	21	89	0	62	37	2	0	60	1.11
3186442--3186482	16	2.5	17	84	7	50	60	4	19	14	1.51
3192668--3192706	14	2.7	14	80	4	51	25	2	2	69	1.14
3196921--3197031	42	2.7	40	78	12	116	26	19	24	29	1.99
3199611--3199787	46	3.8	46	93	0	300	36	9	24	29	1.86
3201823--3201867	20	2.2	20	84	0	63	53	2	0	44	1.13
3202356--3202398	21	2.0	21	86	8	61	34	0	13	51	1.42
3231900--3231930	16	1.9	16	93	0	53	74	0	6	19	1.03
3236783--3236974	93	2.1	93	86	5	264	34	22	10	31	1.89
3238436--3238470	17	2.1	17	89	10	54	28	0	0	71	0.86
3245079--3245104	6	4.3	6	100	0	52	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3249668--3249748	17	4.8	17	78	14	80	51	4	1	41	1.31
3249626--3249757	50	2.7	49	77	11	135	53	4	3	37	1.39
3251640--3251664	8	3.1	8	100	0	50	24	0	24	52	1.48
3264027--3264102	35	2.2	35	90	2	118	18	6	17	57	1.60
3269356--3269385	15	1.9	16	93	6	53	0	33	3	63	1.11
3271865--3271900	18	1.9	18	88	5	54	58	2	0	38	1.13
3271893--3271942	16	3.2	16	70	18	52	52	0	0	48	1.00
3271875--3271939	29	2.2	30	86	10	89	55	0	0	44	0.99
3272603--3272630	14	2.0	14	100	0	56	28	0	7	64	1.20
3272623--3272685	19	3.4	17	82	10	63	34	0	3	61	1.12

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