genome.fa.s16.2.7.7.80.10.50.1000.62.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  62  of  175  ( 20966 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)
18245630--18245675	23	2.0	23	83	4	58	19	4	45	30	1.70
18268718--18268760	11	4.0	10	82	11	50	74	11	4	9	1.20
18268725--18268758	10	3.3	10	84	8	50	73	11	5	8	1.24
18273604--18273628	13	1.9	13	100	0	50	16	16	0	68	1.22
18286217--18286655	221	2.0	221	88	1	657	26	13	19	40	1.89
18290109--18290136	13	2.2	13	100	0	56	25	21	14	39	1.91
18295862--18295906	13	3.5	13	75	0	54	17	31	13	37	1.89
18295856--18295915	26	2.3	26	97	0	111	15	33	15	36	1.88
18297564--18297590	2	13.5	2	100	0	54	51	0	0	48	1.00
18298144--18298189	21	2.2	21	84	3	58	54	8	4	32	1.51
18307654--18307700	22	2.1	22	96	0	85	31	12	25	29	1.93
18310418--18310469	26	2.0	26	92	0	86	32	7	5	53	1.53
18319364--18319397	16	2.0	18	88	11	54	35	0	0	64	0.94
18319727--18319771	17	2.6	18	89	6	67	48	6	0	44	1.29
18319796--18319851	29	1.9	28	82	13	69	37	3	1	57	1.27
18322914--18322942	14	2.1	14	100	0	58	41	10	20	27	1.85
18323116--18323149	16	2.1	16	88	0	50	41	11	2	44	1.56
18324977--18325016	19	2.1	19	85	0	53	27	2	10	60	1.42
18326330--18326748	206	2.0	206	98	0	811	32	19	11	37	1.87
18333395--18333433	19	2.1	19	85	9	53	48	0	7	43	1.31
18333400--18333430	16	1.9	16	100	0	62	51	0	6	41	1.27
18333562--18333589	5	5.6	5	100	0	56	42	17	0	39	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18333854--18333887	18	1.9	17	88	5	50	32	0	0	67	0.91
18335824--18335891	16	4.2	16	96	0	127	26	0	35	38	1.57
18336014--18336330	157	2.0	157	94	1	555	43	3	5	47	1.41
18336264--18336305	15	2.7	16	82	14	52	52	2	0	45	1.13
18336273--18336314	15	2.9	15	82	10	52	52	0	0	47	1.00
18336267--18336559	120	2.4	121	94	2	502	50	4	3	41	1.39
18336393--18336434	15	2.9	15	82	10	52	52	0	0	47	1.00
18338193--18338259	35	1.9	35	90	0	107	53	16	7	22	1.67
18345307--18345391	42	2.0	42	100	0	170	36	9	21	32	1.85
18349125--18349168	13	3.6	13	82	17	67	47	13	0	38	1.43
18349126--18349175	23	2.2	23	88	0	73	50	14	0	36	1.43
18356469--18356520	23	2.3	23	89	0	77	48	11	1	38	1.51
18356433--18356488	13	4.5	13	82	13	82	48	16	1	33	1.56
18356433--18356503	36	2.0	36	94	0	124	46	15	1	36	1.55
18357388--18357422	17	2.0	17	88	5	52	68	2	0	28	1.04
18359644--18359683	20	2.0	20	100	0	80	50	10	5	35	1.58
18361298--18361334	19	2.0	19	89	5	58	54	0	18	27	1.44
18361796--18361942	54	2.6	53	85	8	168	46	12	14	26	1.80
18370205--18370230	6	4.3	6	100	0	52	69	0	15	15	1.20
18370182--18370348	57	2.8	63	81	11	231	47	7	17	28	1.74
18374422--18374479	12	4.8	12	80	2	71	13	32	1	51	1.51
18382960--18383426	236	2.0	237	92	1	785	41	11	21	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18387230--18387258	7	4.1	7	100	0	58	31	27	27	13	1.94
18391220--18391259	12	3.0	13	85	14	55	30	17	5	47	1.69
18398731--18398881	33	4.5	33	72	22	143	33	28	19	19	1.96
18398687--18398883	102	2.0	99	89	6	299	32	28	18	19	1.96
18398760--18398954	75	2.8	68	86	9	273	32	29	17	21	1.96
18398975--18399116	50	2.8	49	83	6	160	30	27	16	24	1.97
18401341--18401373	8	4.1	8	100	0	66	75	0	0	24	0.80
18402519--18402575	26	2.2	26	96	0	105	35	17	17	29	1.93
18403394--18403418	13	1.9	13	100	0	50	56	24	0	20	1.43
18403657--18403693	18	2.0	19	89	5	58	16	10	27	45	1.80
18408068--18408123	25	2.2	25	90	0	94	25	25	25	25	2.00
18422149--18422173	9	2.8	9	100	0	50	12	24	0	64	1.27
18425528--18425565	19	2.0	19	94	0	67	44	5	2	47	1.39
18430134--18430171	18	2.1	18	95	0	67	7	7	15	68	1.37
18431770--18431812	18	2.4	18	96	3	79	39	18	4	37	1.72
18440688--18440782	44	2.2	44	98	1	183	29	12	34	23	1.92
18446758--18446790	13	2.6	13	90	4	50	51	27	3	18	1.60
18447764--18447801	14	2.7	15	84	12	53	21	0	2	76	0.91
18456944--18457045	34	2.9	35	79	7	136	31	28	23	16	1.96
18456868--18457104	74	3.3	74	75	8	236	33	24	20	21	1.97
18460298--18460336	19	2.1	19	100	0	78	33	20	20	25	1.97
18480966--18481097	50	2.6	50	82	0	156	18	28	25	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18485922--18486100	52	3.5	51	87	4	247	26	30	16	26	1.97
18485922--18486100	51	3.5	51	89	4	256	26	30	16	26	1.97
18490182--18490243	26	2.4	26	94	0	106	38	14	12	33	1.84
18491996--18492026	16	1.9	16	100	0	62	54	19	6	19	1.65
18495325--18495355	13	2.4	13	94	0	53	80	0	0	19	0.71
18496730--18496761	16	2.0	16	93	0	55	28	6	0	65	1.16
18498088--18498140	21	2.4	23	87	12	92	43	9	0	47	1.36
18510401--18510449	20	2.5	20	96	0	89	22	24	0	53	1.47
18512173--18512200	5	5.6	5	100	0	56	39	0	0	60	0.97
18512288--18512330	23	1.9	22	81	13	52	27	20	4	46	1.71
18518336--18518361	11	2.4	11	100	0	52	50	0	0	50	1.00
18518406--18518480	23	3.3	23	75	14	91	20	13	26	40	1.89
18526547--18526595	21	2.3	21	96	3	89	20	10	20	48	1.78
18526555--18526601	21	2.2	21	88	3	67	29	12	17	40	1.86
18529064--18529102	19	2.0	20	95	5	71	53	5	5	35	1.45
18537628--18537677	21	2.4	21	90	9	77	58	2	4	36	1.29
18537628--18537680	19	2.6	20	85	11	72	58	1	3	35	1.27
18541749--18541852	46	2.3	46	89	0	163	39	14	13	32	1.85
18544482--18544511	16	1.9	15	93	6	51	30	10	13	46	1.75
18545791--18545907	28	4.2	28	80	1	128	29	21	22	26	1.99
18545791--18545916	56	2.3	56	79	5	148	30	20	22	26	1.98
18546273--18546688	27	15.4	27	82	3	433	20	17	20	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18549480--18549561	26	3.2	25	74	8	67	25	21	19	32	1.97
18549510--18549556	24	2.0	24	86	0	67	23	25	19	31	1.98
18560179--18560255	26	3.0	26	82	0	100	38	25	20	14	1.91
18560406--18560524	27	4.4	27	78	6	125	20	16	19	43	1.88
18560406--18560524	54	2.2	54	89	3	177	20	16	19	43	1.88
18577317--18577872	139	4.1	138	86	6	778	46	5	7	40	1.56
18577317--18577820	267	1.9	260	88	5	706	45	5	7	41	1.55
18580069--18580176	53	2.0	53	94	0	189	39	22	6	31	1.79
18580438--18580476	12	3.2	12	92	0	60	20	17	5	56	1.60
18580746--18580858	50	2.3	50	79	0	127	22	28	22	27	1.99
18583570--18583641	23	3.1	22	73	15	65	15	13	26	44	1.84
18585340--18585384	15	2.9	16	81	12	58	53	0	0	46	1.00
18585340--18585382	16	2.8	16	82	10	54	53	0	0	46	1.00
18585345--18585391	25	1.9	24	83	12	60	51	0	2	46	1.13
18587979--18588011	12	3.0	11	87	12	50	54	9	0	36	1.32
18593020--18593181	81	2.0	81	96	0	297	32	21	12	33	1.91
18597817--18597846	16	1.9	15	93	6	51	6	23	3	66	1.30
18604062--18604156	26	3.7	26	85	0	127	21	25	30	23	1.99
18606140--18606212	29	2.5	30	82	14	100	27	13	30	28	1.94
18606171--18606497	174	1.9	173	95	0	591	29	14	24	30	1.95
18617647--18617844	102	1.9	102	87	2	290	25	16	27	30	1.96
18617645--18617833	51	3.7	51	81	0	225	25	16	26	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18619372--18619463	46	2.0	46	97	0	175	39	10	9	40	1.73
18619816--18619905	25	3.6	25	82	5	101	24	21	23	31	1.98
18624779--18624839	30	2.0	30	93	0	104	34	14	14	36	1.87
18627993--18628090	29	3.4	29	80	6	94	37	9	25	27	1.86
18628079--18628149	29	2.4	29	83	4	81	42	12	25	19	1.87
18634247--18634294	20	2.4	21	76	13	57	77	6	2	14	1.06
18640938--18641003	20	3.2	20	79	12	62	51	9	7	31	1.62
18648223--18648656	27	16.1	27	80	8	381	17	20	20	41	1.90
18650811--18650901	46	2.0	46	86	2	130	47	15	2	35	1.58
18657032--18657221	88	2.1	90	88	5	278	44	4	4	46	1.43

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