genome.fa.s17.2.7.7.80.10.50.1000.62.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: 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  62  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)
17932392--17932569	27	6.6	27	82	3	178	29	27	15	27	1.96
17952218--17952294	29	2.7	28	82	10	102	25	12	31	29	1.93
17952248--17952746	173	2.9	173	98	1	948	29	14	25	30	1.94
17956958--17956988	14	2.2	14	100	0	62	19	6	6	67	1.35
17958042--17958075	6	5.7	6	92	0	59	0	64	0	35	0.94
17958040--17958080	12	3.4	12	86	6	57	2	58	0	39	1.11
17960602--17960652	24	2.2	24	77	22	56	33	0	5	60	1.21
17960808--17960874	34	1.9	35	87	3	100	47	14	7	29	1.72
17960843--17960882	14	2.9	14	84	0	53	42	17	7	32	1.77
17971065--17971100	16	2.2	16	90	0	54	16	27	25	30	1.97
17971072--17971189	41	2.9	41	84	0	146	17	21	26	34	1.95
17974647--17974718	16	4.5	16	94	0	126	31	30	11	26	1.91
17978025--17978254	118	1.9	120	93	2	401	43	0	4	51	1.27
17978186--17978232	18	2.6	18	90	6	69	42	0	0	57	0.98
17978183--17978299	41	2.7	40	73	20	101	43	0	1	53	1.16
17980539--17980582	5	8.4	5	85	9	61	77	0	2	20	0.88
17980539--17980582	11	4.1	11	82	5	63	77	0	2	20	0.88
17980532--17980580	21	2.3	21	89	6	73	75	0	4	20	0.96
17980904--17980934	11	2.8	11	90	0	53	19	29	0	51	1.47
17980897--17980949	22	2.4	22	84	12	72	22	32	0	45	1.53
17981007--17981049	12	3.8	12	81	12	54	44	0	0	55	0.99
17981007--17981045	11	3.5	11	82	10	53	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17982781--17982820	18	2.2	18	86	0	53	22	30	10	37	1.87
17983240--17983350	45	2.5	45	91	1	170	38	0	11	48	1.46
17985939--17985976	19	2.0	19	89	0	58	15	18	28	36	1.92
17986035--17986308	41	6.8	39	78	9	239	22	18	25	33	1.97
17986035--17986308	81	3.4	80	77	7	275	22	18	25	33	1.97
17986664--17986721	28	2.0	29	83	3	73	29	0	36	34	1.58
17986656--17986706	21	2.4	21	78	12	52	27	0	39	33	1.57
17990496--17990541	16	2.9	16	83	0	65	45	0	26	28	1.54
17990730--17990790	18	3.3	18	90	2	95	62	1	0	36	1.05
17990756--17990947	56	3.3	54	72	18	179	51	4	1	43	1.28
17990849--17990927	28	2.9	26	80	10	86	53	1	0	45	1.08
17990757--17990961	59	3.4	60	71	11	150	51	4	0	42	1.28
17990757--17990975	119	1.8	119	95	1	395	52	4	0	42	1.28
17992365--17992470	49	2.1	51	86	6	146	50	9	5	34	1.59
17996108--17996151	20	2.2	20	100	0	88	59	9	27	4	1.48
17996226--17996255	12	2.5	12	94	0	51	43	20	3	33	1.68
17998058--17998227	85	2.0	86	92	1	288	20	17	32	30	1.95
17997995--17998229	43	5.5	43	87	3	289	22	17	29	31	1.96
17999261--18001089	870	2.1	856	83	5	2259	34	18	14	32	1.91
18002529--18003262	310	2.4	313	93	1	1264	51	7	10	29	1.64
18002529--18003262	157	4.7	157	93	2	1223	51	7	10	29	1.64
18008880--18008919	3	13.3	3	89	0	62	0	40	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18025449--18025528	29	2.6	31	84	13	103	45	0	2	52	1.14
18034879--18034917	21	1.9	21	89	5	62	23	0	2	74	0.94
18034887--18034927	21	2.0	21	85	4	57	29	0	2	68	1.03
18035126--18035241	43	2.7	43	87	1	180	22	27	19	30	1.98
18035126--18035306	86	2.1	87	81	5	206	22	24	18	34	1.96
18035671--18035722	21	2.5	21	93	0	86	1	42	19	36	1.62
18041675--18041748	22	3.3	22	72	12	62	43	17	20	18	1.88
18041989--18042040	24	2.2	24	96	0	95	51	15	7	25	1.69
18042169--18042361	27	7.1	28	82	12	167	25	16	18	39	1.91
18042183--18042361	54	3.3	54	87	9	265	25	16	19	38	1.92
18042183--18042361	81	2.2	81	91	4	281	25	16	19	38	1.92
18044022--18044131	45	2.4	45	84	0	130	35	20	18	25	1.95
18047465--18047580	37	3.1	37	94	0	196	25	31	18	24	1.98
18047698--18048025	47	6.9	49	88	3	465	29	30	8	31	1.86
18047698--18048025	96	3.4	96	90	1	489	29	30	8	31	1.86
18047950--18048103	80	1.9	78	97	2	290	29	31	7	31	1.86
18047901--18048151	127	2.0	126	94	3	441	29	30	7	31	1.85
18047999--18048057	31	1.9	30	96	3	109	28	33	6	30	1.83
18048030--18048214	47	3.9	47	95	1	343	29	30	8	31	1.86
18048030--18048214	95	2.0	94	96	1	343	29	30	8	31	1.86
18053454--18053492	20	2.0	20	90	10	62	15	23	5	56	1.59
18053764--18053929	50	3.2	50	82	6	154	22	29	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18053793--18053934	50	2.7	52	82	8	171	23	30	21	25	1.99
18055955--18117280	514	117.1	515	78	12	44346	35	11	19	34	1.87
18074695--18079607	511	9.6	515	95	2	8801	36	8	19	35	1.82
18079614--18081230	512	3.2	513	92	2	2673	36	8	20	34	1.83
18082612--18082783	40	4.3	40	88	2	213	26	27	20	25	1.99
18082614--18082836	40	5.6	39	82	5	207	26	27	21	25	1.99
18082612--18082836	80	2.8	79	80	7	231	26	27	20	25	1.99
18082768--18082845	40	1.9	41	82	10	97	26	28	20	24	1.99
18090552--18090658	39	2.7	40	89	1	144	28	27	19	25	1.99
18090552--18090774	40	5.6	39	81	5	198	26	27	21	25	1.99
18090706--18090783	40	1.9	41	82	10	97	26	28	20	24	1.99
18092302--18117280	515	49.0	515	97	1	46379	36	8	20	35	1.82
18117435--18117473	17	2.2	19	86	9	55	10	2	0	87	0.65
18130908--18131085	27	6.6	27	83	3	205	26	15	28	29	1.96
18130909--18131064	82	1.9	81	88	3	233	26	15	28	29	1.96
18130905--18131085	82	2.2	81	83	2	229	27	15	27	29	1.96
18135437--18135493	20	2.8	20	89	0	78	22	29	0	47	1.52
18142286--18142333	25	1.9	25	86	0	69	56	0	2	41	1.11
18153390--18153431	20	2.1	20	86	0	57	47	0	7	45	1.30
18162502--18162541	17	2.3	19	83	12	50	62	5	17	15	1.49
18162834--18162887	26	2.1	26	100	0	108	46	35	7	11	1.67
18162954--18162978	12	2.1	12	100	0	50	52	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18169403--18169499	24	4.1	24	83	2	124	50	0	23	25	1.49
18169405--18169499	47	2.0	47	97	0	181	50	0	24	25	1.49
18169743--18169795	18	3.0	17	91	5	79	56	1	1	39	1.21
18169777--18169959	61	3.0	61	70	12	180	50	4	3	42	1.38
18175576--18175606	6	5.2	6	92	0	53	45	16	3	35	1.63
18176136--18176604	234	2.0	234	98	0	911	44	10	3	42	1.54
18176594--18176659	13	5.1	13	90	0	96	33	27	7	31	1.85
18177959--18178010	11	4.2	12	79	16	54	73	3	21	1	1.10
18177964--18178010	24	2.0	24	91	8	78	72	4	21	2	1.12
18180917--18181093	27	6.5	27	79	3	158	25	16	28	28	1.97
18180917--18181072	82	1.9	81	82	3	197	26	16	28	28	1.97
18180971--18181093	55	2.3	54	86	1	165	24	17	30	28	1.97
18180913--18181093	82	2.2	81	79	2	193	26	16	28	28	1.97
18188511--18188687	27	6.5	27	80	3	167	25	16	29	28	1.97
18188511--18188666	82	1.9	81	84	3	206	25	16	29	28	1.97
18188507--18188687	82	2.2	81	80	2	202	25	16	28	28	1.97
18205987--18206023	10	3.8	10	92	3	58	29	0	5	64	1.15
18210429--18210637	27	7.7	27	85	0	247	35	20	21	22	1.96
18210428--18210634	81	2.6	81	87	1	281	36	19	21	22	1.95
18210698--18210757	24	2.5	24	83	5	86	21	8	25	45	1.80
18210825--18210890	27	2.4	27	80	9	73	21	22	21	34	1.96
18210872--18210925	26	2.1	26	92	0	90	20	14	22	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18210928--18211206	32	8.7	32	77	6	235	21	21	21	36	1.96
18210925--18211206	64	4.4	64	78	8	288	21	21	21	36	1.96
18210927--18211206	96	2.9	94	78	6	285	21	21	21	36	1.96
18227566--18227613	22	2.2	22	85	7	62	29	39	0	31	1.57
18237314--18237348	18	1.9	17	88	11	52	60	11	0	28	1.32
18237559--18237629	3	23.3	3	97	2	133	32	1	0	66	1.01
18238790--18238820	14	2.2	14	100	0	62	22	22	19	35	1.96
18257532--18257581	26	1.9	26	91	0	82	38	18	6	38	1.75
18275495--18275526	15	2.1	15	100	0	64	34	0	25	40	1.56
18288679--18288734	3	18.7	3	89	7	87	0	28	0	71	0.86

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