genome.fa.s17.2.7.7.80.10.50.1000.46.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  46  of  185  ( 22116 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)
12907173--12908030	45	19.1	45	84	0	1036	29	16	23	30	1.96
12908114--12908293	44	4.1	44	68	8	114	28	18	26	26	1.98
12908038--12908441	132	3.1	132	89	1	587	30	19	23	26	1.98
12908538--12908695	44	3.6	43	77	7	147	25	17	25	31	1.97
12909076--12909129	19	2.8	19	94	0	90	38	9	16	35	1.81
12909076--12909152	19	3.7	22	84	6	67	38	7	16	36	1.78
12910423--12910559	25	5.7	24	82	10	149	18	24	18	37	1.94
12911500--12911587	26	3.4	26	75	4	88	27	21	15	35	1.94
12911595--12911794	28	7.1	27	70	5	96	30	17	19	32	1.95
12914852--12914923	28	2.6	28	90	0	108	29	27	13	29	1.95
12929676--12930019	95	3.7	94	74	14	235	29	15	18	37	1.91
12933070--12933100	13	2.4	13	94	0	53	0	25	0	74	0.82
12934482--12934509	2	14.0	2	100	0	56	50	0	50	0	1.00
12935412--12935440	2	14.5	2	100	0	58	0	48	0	51	1.00
12939969--12940037	27	2.6	27	86	4	95	26	18	26	28	1.98
12942839--12942887	20	2.3	22	75	17	57	42	26	14	16	1.86
12942847--12942887	20	2.0	20	90	0	64	41	26	17	14	1.88
12947733--12947780	6	8.0	6	83	0	60	16	35	4	43	1.67
12949887--12949920	17	2.0	17	94	0	59	47	0	26	26	1.53
12954664--12954776	9	11.6	10	67	20	53	61	0	6	31	1.20
12954664--12954776	10	11.7	9	71	17	52	61	0	6	31	1.20
12954991--12955089	28	3.5	28	76	13	80	33	4	0	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12955026--12955089	28	2.2	28	86	8	85	35	1	0	62	1.05
12969535--12969624	45	2.0	45	93	0	153	31	21	23	24	1.98
12991447--12991480	16	2.1	16	94	0	59	20	29	5	44	1.75
12993830--12993899	30	2.4	28	83	7	77	41	11	5	41	1.65
13000353--13000399	19	2.5	19	82	0	58	63	0	0	36	0.94
13020625--13021375	44	16.9	44	73	8	439	28	20	18	32	1.96
13020532--13021244	226	3.2	224	80	8	738	28	21	18	31	1.97
13020625--13021377	88	8.5	88	74	8	574	28	20	18	32	1.96
13020633--13021375	133	5.6	132	76	8	529	28	20	18	32	1.97
13020864--13021375	177	2.9	176	84	4	636	28	19	19	32	1.96
13022632--13022696	31	2.1	30	82	2	76	18	20	20	41	1.91
13024549--13024647	48	2.1	48	98	0	189	51	4	19	25	1.64
13024563--13024636	23	3.1	23	64	21	62	52	2	20	24	1.59
13024567--13024646	25	3.3	25	67	19	78	53	5	18	22	1.63
13029375--13029410	4	9.0	4	93	0	63	52	0	0	47	1.00
13031741--13031780	19	2.1	19	90	0	62	37	2	0	60	1.11
13031745--13031787	19	2.2	19	83	4	50	34	2	4	58	1.32
13037003--13037042	4	10.2	4	89	5	64	77	20	0	2	0.88
13038328--13038373	24	1.9	24	95	0	83	43	8	0	47	1.34
13038414--13038466	27	2.0	27	92	0	88	33	16	26	22	1.96
13038417--13038497	27	3.0	28	82	5	87	33	20	27	18	1.96
13038558--13038632	19	4.0	19	82	3	98	34	12	0	53	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13038571--13038641	37	1.9	37	94	0	124	42	9	0	47	1.36
13038624--13038662	17	2.4	17	95	4	71	56	0	5	38	1.22
13038960--13039015	27	2.1	27	86	0	76	19	26	21	32	1.97
13043086--13043110	5	5.0	5	100	0	50	60	0	0	40	0.97
13044496--13044589	38	2.6	36	82	3	125	24	9	25	40	1.85
13045329--13045358	16	1.9	15	93	6	51	46	16	10	26	1.78
13048978--13049087	55	2.0	55	100	0	220	38	14	25	21	1.92
13051278--13051330	27	2.0	27	88	0	79	30	5	9	54	1.55
13058039--13058166	45	2.8	45	84	5	168	38	21	13	27	1.90
13058925--13059040	43	2.7	43	86	5	146	37	22	12	26	1.90
13062858--13062887	12	2.5	12	94	0	51	30	33	16	20	1.94
13078103--13078131	6	4.8	6	100	0	58	13	0	0	86	0.58
13079902--13079985	16	5.4	16	70	16	50	48	15	13	22	1.79
13079887--13079990	32	3.3	32	72	9	97	46	19	13	21	1.84
13083249--13083298	23	2.2	23	82	7	57	50	4	12	34	1.58
13099336--13099370	12	3.0	11	91	8	52	77	0	22	0	0.78
13100527--13100617	23	4.1	23	78	7	89	21	16	20	40	1.91
13102899--13102967	26	2.6	27	75	4	79	36	15	7	40	1.76
13121749--13121824	27	2.8	26	84	4	80	23	25	13	38	1.91
13124155--13124211	28	2.0	28	86	0	78	5	28	5	61	1.39
13124260--13124290	16	1.9	16	93	0	53	16	35	0	48	1.46
13125055--13125140	45	1.9	45	90	4	138	52	22	4	20	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13125109--13125167	28	2.0	28	83	9	73	50	23	3	22	1.63
13127780--13127828	20	2.4	21	80	10	57	53	8	12	26	1.66
13130044--13130084	21	2.0	21	85	0	55	43	14	0	41	1.45
13130155--13130215	30	2.0	30	96	0	113	22	22	11	42	1.86
13130951--13131002	26	2.0	28	85	11	74	59	9	3	26	1.46
13131000--13131231	4	57.8	4	76	16	173	52	19	2	25	1.57
13131262--13131380	12	9.5	13	72	23	80	52	21	5	20	1.65
13131300--13131366	36	1.9	34	85	11	91	53	23	4	17	1.62
13131478--13131523	19	2.4	18	82	13	56	65	13	4	17	1.42
13133000--13133075	35	2.2	35	78	4	82	40	11	2	44	1.55
13133514--13133718	70	2.9	70	92	0	329	30	16	18	34	1.93
13144829--13145405	85	6.7	83	76	8	410	30	22	20	26	1.98
13144786--13145199	129	3.2	129	89	0	621	30	22	21	25	1.98
13144736--13145419	214	3.2	213	85	3	788	31	21	20	26	1.98
13144781--13145324	129	4.2	129	85	2	614	31	22	20	25	1.98
13145165--13145410	129	1.9	129	92	0	411	30	21	21	26	1.98
13147964--13148011	22	2.1	23	84	3	62	2	20	0	77	0.88
13157680--13157747	35	1.9	35	82	5	84	36	13	4	45	1.63
13157800--13157834	8	4.4	8	92	0	52	28	2	0	68	1.04
13157794--13157834	16	2.5	16	88	4	55	31	2	0	65	1.05
13158194--13158399	71	2.9	71	91	2	324	28	17	18	35	1.94
13158950--13159012	29	2.2	28	88	5	99	63	3	9	23	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13159004--13159045	22	1.9	22	90	0	66	61	4	7	26	1.42
13159028--13159141	55	2.1	56	85	5	151	50	19	8	21	1.75
13160281--13160306	13	2.0	13	100	0	52	38	7	7	46	1.61
13162895--13162948	25	2.2	25	96	0	99	40	22	5	31	1.77
13167186--13167547	199	1.8	199	82	1	474	31	26	17	25	1.97
13170950--13171028	27	2.8	29	75	12	76	46	0	2	50	1.14
13170967--13171029	27	2.4	28	84	7	78	50	0	0	49	1.00
13174220--13174249	12	2.5	12	100	0	60	43	6	20	30	1.77
13176601--13176702	42	2.4	43	83	1	125	24	17	25	32	1.97
13178898--13178950	20	2.6	20	77	11	54	79	7	9	3	1.05
13183082--13183118	17	2.2	17	90	0	56	37	10	2	48	1.52
13185378--13185420	23	1.9	22	90	4	68	55	2	6	34	1.39
13185452--13185498	24	2.0	24	83	8	60	51	2	6	40	1.39
13185515--13185578	32	1.9	35	84	9	89	50	3	9	37	1.51
13186121--13186209	22	4.2	22	80	11	105	35	15	7	40	1.77
13186169--13186222	19	2.8	19	97	0	99	33	16	12	37	1.87
13186731--13186846	44	2.6	45	83	6	148	32	23	13	30	1.93
13186788--13187109	132	2.4	132	92	0	536	27	22	18	30	1.98
13187078--13187332	44	5.8	44	88	5	340	29	25	18	27	1.98
13186793--13187285	132	3.7	131	83	3	347	28	23	18	29	1.98
13187078--13187332	132	1.9	132	88	1	386	29	25	18	27	1.98
13191456--13191499	19	2.3	19	84	7	54	36	11	20	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13193714--13193777	32	1.9	35	84	9	89	50	3	9	37	1.51
13194339--13194390	19	2.9	17	78	10	59	32	15	11	40	1.83
13195383--13195457	39	1.9	39	89	5	116	37	20	10	32	1.87
13196006--13196073	30	2.2	31	84	2	84	47	7	19	26	1.75
13202165--13202238	32	2.3	32	80	2	85	24	0	5	70	1.08
13202280--13202353	29	2.5	29	82	4	85	22	14	14	47	1.82
13202880--13202956	29	2.6	29	83	4	91	46	14	14	24	1.81
13203005--13203051	17	2.8	17	75	12	53	21	0	10	68	1.20
13202996--13203056	32	1.9	32	83	6	79	21	0	11	67	1.22
13203230--13203269	19	2.1	19	90	0	62	65	5	0	30	1.14

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