genome.fa.s20.2.7.7.80.10.50.1000.42.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  42  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)
12645542--12645578	16	2.3	16	86	13	58	29	2	5	62	1.31
12645322--12645580	106	2.5	102	82	9	319	27	0	14	57	1.43
12649073--12649097	8	3.1	8	100	0	50	0	16	12	72	1.13
12653232--12653265	3	11.3	3	100	0	68	67	0	32	0	0.91
12653486--12653529	17	2.6	18	86	13	58	79	2	18	0	0.83
12653486--12653529	12	3.5	13	82	17	58	79	2	18	0	0.83
12654883--12655232	45	7.9	43	73	9	249	29	24	23	22	1.99
12654844--12655253	89	4.6	89	82	4	470	30	23	22	23	1.99
12654823--12655239	178	2.3	178	85	1	532	30	23	22	23	1.99
12655456--12655719	50	5.3	50	69	3	190	30	20	20	28	1.98
12655438--12655726	100	2.9	100	84	1	391	30	20	21	28	1.98
12656133--12656187	26	2.1	26	100	0	110	20	25	14	40	1.90
12658171--12658306	72	1.9	72	84	0	182	32	17	16	33	1.93
12659398--12659489	17	5.0	17	70	17	67	46	9	11	31	1.73
12659639--12659708	33	2.1	33	82	10	81	61	11	7	20	1.53
12659822--12659878	19	3.3	16	80	20	62	1	15	0	82	0.75
12659822--12659879	10	6.6	9	77	16	59	1	15	0	82	0.74
12659822--12659882	27	2.2	28	88	2	88	1	14	0	83	0.72
12659822--12659878	17	3.3	17	83	9	71	1	15	0	82	0.75
12660193--12660231	7	5.3	7	87	9	51	0	17	0	82	0.68
12660192--12660225	8	4.4	8	88	7	52	0	14	0	85	0.60
12660193--12660231	15	2.6	15	91	0	60	0	17	0	82	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12660196--12660228	4	8.5	4	86	6	50	0	18	0	81	0.68
12660872--12661646	77	10.0	77	89	3	1001	36	19	16	27	1.94
12660890--12661650	232	3.3	233	89	3	1110	36	19	16	27	1.93
12660871--12661650	155	5.0	155	90	2	1090	36	19	16	27	1.93
12661608--12661693	43	2.0	43	95	0	154	53	4	12	29	1.59
12661532--12661757	120	1.9	121	86	0	328	42	14	15	27	1.85
12668618--12668764	18	7.9	18	65	21	54	42	9	12	35	1.75
12668602--12668642	19	2.1	20	86	4	57	36	9	12	41	1.76
12668605--12668644	20	2.0	21	90	5	64	37	10	12	40	1.77
12668639--12668714	18	4.3	17	72	9	55	44	9	11	34	1.73
12675104--12675142	20	2.0	20	85	10	53	0	12	12	74	1.08
12675176--12675226	16	3.1	16	82	17	68	3	19	50	25	1.64
12675254--12675309	4	13.8	4	88	7	78	0	21	0	78	0.75
12675246--12675309	25	2.6	24	85	7	92	0	21	0	78	0.76
12675255--12675351	9	10.7	9	85	14	73	0	25	0	74	0.82
12675254--12675358	37	2.8	41	84	12	138	0	27	0	72	0.85
12675275--12675358	3	28.0	3	87	11	111	0	28	0	71	0.86
12675369--12675412	15	2.8	16	82	6	63	4	43	27	25	1.74
12675707--12675850	30	4.9	29	84	3	189	44	6	15	32	1.74
12675707--12675850	59	2.4	59	84	2	191	44	6	15	32	1.74
12679683--12679754	11	6.8	11	72	20	55	61	0	1	37	1.05
12679667--12679743	41	1.9	41	91	2	129	64	0	1	33	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12679686--12679719	17	2.0	17	88	0	50	70	0	0	29	0.87
12679661--12679734	31	2.4	31	74	0	76	62	0	1	36	1.04
12679676--12679795	52	2.3	52	91	1	186	59	0	2	38	1.11
12679726--12679772	9	5.0	9	84	10	51	59	0	0	40	0.97
12693707--12693750	20	2.1	22	91	8	74	22	4	4	68	1.27
12693687--12693748	20	3.2	18	76	13	61	25	3	4	66	1.27
12694443--12694500	11	5.2	11	85	2	71	22	31	1	44	1.63
12694443--12694497	22	2.4	23	87	6	85	23	29	1	45	1.63
12694442--12694518	33	2.3	34	82	8	95	24	28	2	44	1.67
12694478--12694577	51	2.0	51	86	4	139	27	25	3	45	1.68
12697151--12697194	19	2.2	21	92	8	74	25	4	4	65	1.30
12697884--12697941	11	5.2	11	85	2	71	22	31	1	44	1.63
12697884--12697938	22	2.4	23	87	6	85	23	29	1	45	1.63
12697883--12697959	33	2.3	34	82	8	95	24	28	2	44	1.67
12697919--12698018	51	2.0	51	86	4	139	27	25	3	45	1.68
12700269--12700612	22	16.0	21	84	5	413	43	31	0	24	1.58
12700269--12700612	43	8.0	43	82	6	387	43	31	0	24	1.58
12700269--12700612	65	5.4	65	86	5	457	43	31	0	24	1.58
12700705--12700872	37	4.4	38	64	17	107	41	9	7	41	1.65
12700612--12700889	114	2.4	114	96	0	513	42	9	6	41	1.64
12701018--12701764	372	2.0	372	97	0	1395	28	22	21	26	1.99
12704264--12704672	126	3.3	125	92	1	669	29	23	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12705559--12705612	28	1.9	28	81	7	65	51	1	0	46	1.11
12706726--12706765	19	2.1	19	90	0	62	37	15	10	37	1.80
12709647--12709713	35	1.9	35	100	0	134	37	11	14	35	1.84
12712269--12712314	20	2.2	21	81	14	60	10	6	19	63	1.48
12712642--12712672	15	2.1	15	100	0	62	12	6	32	48	1.67
12713919--12713952	16	2.1	16	94	0	59	29	11	14	44	1.81
12716991--12717029	3	13.0	3	83	0	51	66	0	30	2	1.05
12717556--12717608	25	2.1	25	82	6	63	26	9	18	45	1.80
12720584--12720613	14	2.1	15	93	6	53	53	0	36	10	1.35
12722131--12722173	12	3.3	12	81	12	50	34	0	0	65	0.93
12723307--12723349	18	2.4	19	80	11	54	41	9	6	41	1.64
12724493--12724536	19	2.3	20	84	7	56	27	20	11	40	1.86
12728659--12728922	86	3.1	86	92	0	411	26	22	24	26	2.00
12728870--12729116	134	1.8	134	89	0	386	25	21	23	30	1.99
12729124--12730379	44	28.5	45	77	4	1159	27	16	25	30	1.96
12729124--12730292	132	8.9	132	97	0	2124	27	16	25	30	1.96
12730443--12730539	40	2.3	40	82	8	115	32	16	21	28	1.95
12730516--12730925	44	9.5	44	69	8	268	35	21	24	18	1.96
12730516--12730967	86	5.2	87	90	1	624	35	21	23	19	1.96
12734770--12734805	16	2.2	16	95	0	63	27	2	11	58	1.46
12749710--12749750	22	1.9	22	85	5	57	51	24	2	21	1.60
12758155--12758231	32	2.4	32	80	0	91	44	6	24	24	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12762666--12762742	32	2.4	32	80	0	91	44	6	24	24	1.77
12764168--12764206	18	2.2	17	86	13	53	33	0	20	46	1.51
12764432--12764529	23	4.3	23	92	2	162	21	20	26	31	1.98
12764434--12764522	45	2.0	45	95	0	160	20	21	26	31	1.98
12771351--12771389	18	2.2	17	86	13	53	33	0	20	46	1.51
12771617--12771704	22	4.0	22	92	1	131	17	22	27	32	1.96
12771615--12771711	45	2.2	46	83	5	135	18	21	26	32	1.97
12777554--12777602	21	2.4	20	89	3	71	71	0	26	2	0.97
12777554--12777603	17	3.0	17	82	8	59	72	0	26	2	0.96
12794639--12795225	50	11.7	48	71	12	387	31	24	21	22	1.98
12794629--12795235	101	6.1	100	90	0	820	31	24	21	23	1.98
12816488--12816561	28	2.7	27	89	6	112	27	28	12	32	1.92
12828123--12828163	19	2.1	20	86	4	57	31	9	2	56	1.45
12829027--12829059	16	2.1	16	94	0	57	63	9	0	27	1.24
12830745--12830828	36	2.3	36	85	2	105	41	17	5	34	1.74
12831032--12831152	43	2.8	43	81	12	149	29	28	19	22	1.98
12836387--12836468	36	2.3	36	84	0	119	21	10	20	46	1.81
12837162--12837213	21	2.5	21	87	6	70	19	5	40	34	1.75
12837940--12838025	26	3.3	25	85	6	109	52	11	5	30	1.61
12837950--12838186	96	2.5	95	85	2	318	47	17	8	27	1.76
12838061--12838124	26	2.5	25	87	2	83	50	10	9	29	1.69
12838136--12838195	25	2.4	25	80	2	68	45	21	8	25	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12839074--12839138	28	2.3	28	97	2	121	26	26	16	30	1.97
12839309--12839436	62	2.1	60	88	5	186	48	20	7	23	1.75
12839647--12839794	6	23.7	6	77	8	134	58	13	7	20	1.59
12853226--12853276	18	2.8	19	80	13	63	56	5	0	37	1.23
12853265--12853312	17	2.8	18	81	6	64	58	6	0	35	1.23
12875193--12875243	15	3.2	16	75	10	52	70	5	0	23	1.09
12875331--12875369	14	2.6	15	84	8	53	58	0	2	38	1.12
12877455--12877506	24	2.2	24	96	0	95	55	25	3	15	1.57
12878015--12878061	13	3.6	13	82	0	58	57	6	2	34	1.36
12878016--12878065	26	1.9	26	91	0	82	60	6	2	32	1.32

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