genome.fa.s17.2.7.7.80.10.50.1000.94.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  94  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)
29450701--29450757	26	2.1	27	84	9	73	28	8	7	56	1.56
29461602--29461649	19	2.5	20	74	12	57	68	6	8	16	1.35
29474084--29474227	72	2.0	72	87	0	207	31	18	28	21	1.96
29485059--29485320	39	6.7	40	87	7	328	24	27	22	25	2.00
29502154--29502415	39	6.7	40	87	7	328	24	27	22	25	2.00
29505368--29505412	21	2.1	23	88	12	69	26	8	13	51	1.70
29520476--29520549	31	2.5	30	93	6	132	33	17	10	37	1.85
29531434--29531494	30	2.0	30	96	0	113	29	19	14	36	1.92
29532651--29532730	25	3.2	25	66	13	74	41	15	6	37	1.72
29532642--29532744	50	2.1	50	100	0	206	41	15	5	36	1.71
29532665--29532744	25	3.2	25	66	13	74	43	16	7	32	1.76
29533150--29533180	16	1.9	16	93	0	53	41	9	0	48	1.36
29534462--29534988	261	2.0	261	98	0	1027	31	32	7	29	1.84
29545794--29545840	24	2.0	24	91	0	76	51	31	2	14	1.55
29548517--29548553	3	12.3	3	100	0	74	67	0	0	32	0.91
29551714--29551781	29	2.3	29	85	5	93	27	30	13	27	1.94
29573734--29573787	25	2.1	27	83	16	71	31	3	3	61	1.31
29576038--29576084	22	2.2	22	85	11	62	40	4	0	55	1.19
29583445--29584061	88	7.0	88	88	0	880	26	23	25	24	2.00
29585451--29585497	22	2.2	22	85	11	62	40	4	0	55	1.19
29590692--29590725	14	2.5	14	90	4	52	35	2	0	61	1.11
29594596--29594683	44	2.0	44	97	0	167	44	6	23	25	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29595210--29595412	101	2.0	101	97	0	379	45	6	18	28	1.75
29602594--29602641	25	1.9	25	95	0	87	14	10	20	54	1.70
29606101--29606169	27	2.5	27	95	2	120	31	28	13	26	1.93
29608850--29608879	14	2.1	14	93	0	51	36	26	3	33	1.73
29619477--29619693	36	5.2	45	74	20	227	35	14	20	29	1.92
29619477--29619693	82	2.7	82	95	0	382	35	14	20	29	1.92
29623607--29623765	43	3.7	43	73	13	148	23	20	27	28	1.99
29624698--29624758	31	2.0	31	96	0	113	24	3	19	52	1.61
29626036--29626081	21	2.1	22	84	11	60	60	8	8	21	1.53
29626930--29626965	12	3.1	12	92	4	56	22	25	0	52	1.47
29629619--29629650	15	2.1	16	94	5	57	50	3	0	46	1.17
29632299--29632328	15	1.9	16	93	6	53	56	10	0	33	1.32
29633735--29633778	20	2.2	20	87	4	61	61	9	0	29	1.27
29639885--29640464	86	6.7	87	81	7	569	32	14	10	42	1.80
29639885--29640464	174	3.4	174	81	7	598	32	14	10	42	1.80
29651442--29651477	18	2.0	18	100	0	72	27	27	16	27	1.97
29651892--29652048	60	2.6	61	78	7	160	22	21	19	36	1.95
29652058--29652204	58	2.5	60	83	8	183	41	17	20	20	1.90
29657373--29657432	30	2.0	30	83	0	75	60	3	1	35	1.23
29657424--29657484	11	5.8	11	71	24	51	59	0	1	39	1.08
29657394--29657501	41	2.7	40	81	7	130	62	0	1	35	1.06
29657427--29657507	17	4.4	17	71	19	63	64	0	1	34	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29657410--29657473	30	2.1	31	88	5	96	62	0	1	35	1.05
29657444--29657473	12	2.5	12	94	0	51	63	0	0	36	0.95
29657871--29657901	9	3.4	9	90	0	53	25	12	22	38	1.90
29657955--29657991	9	4.1	9	92	0	65	45	13	10	29	1.77
29673306--29673349	22	2.0	21	83	12	54	40	0	0	59	0.98
29679369--29679406	21	1.9	19	85	15	51	47	15	2	34	1.60
29695210--29695249	20	2.0	20	90	0	62	27	10	12	50	1.72
29695195--29695261	34	1.9	35	90	3	109	31	8	13	46	1.74
29695189--29695265	14	5.0	15	71	20	52	33	9	14	42	1.77
29698686--29698718	17	1.9	17	88	11	50	57	9	0	33	1.30
29700397--29700443	17	2.8	16	87	3	58	29	0	14	55	1.40
29701302--29701486	46	4.0	46	91	0	298	34	10	26	28	1.90
29707784--29707823	20	2.0	20	85	0	53	32	5	0	62	1.17
29708257--29708498	50	4.8	50	76	4	225	30	26	16	26	1.97
29708254--29708495	101	2.4	101	82	4	292	30	26	17	26	1.97
29717654--29717697	23	1.9	23	90	0	70	47	6	34	11	1.66
29735211--29735348	43	3.3	43	74	8	138	31	16	25	26	1.97
29743649--29744235	31	19.1	30	69	11	262	42	14	7	35	1.74
29743629--29744229	92	6.5	92	91	0	907	42	14	6	35	1.73
29753459--29753503	15	2.6	17	80	20	58	55	0	2	42	1.12
29754463--29754852	194	2.0	194	91	3	633	32	16	17	33	1.93
29755075--29755135	3	20.3	3	100	0	122	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29755686--29755762	39	2.0	38	84	2	100	36	14	6	42	1.71
29759639--29759690	16	3.2	16	86	0	77	42	1	25	30	1.66
29759857--29759972	61	1.9	61	87	5	173	57	0	1	39	1.15
29765425--29765738	27	11.7	27	81	7	286	41	18	15	24	1.89
29765436--29765738	54	5.6	54	81	6	328	41	18	16	23	1.90
29768128--29768189	24	2.6	24	79	5	72	25	16	27	30	1.96
29770746--29770872	62	2.1	58	86	5	173	49	3	3	43	1.37
29771523--29771664	68	2.1	66	93	2	239	45	9	4	40	1.57
29771643--29771705	23	2.7	23	78	7	65	44	3	3	49	1.34
29773471--29773529	29	2.0	29	96	0	109	35	18	5	40	1.73
29775039--29775081	14	3.2	14	74	12	54	18	27	2	51	1.59
29775631--29775663	14	2.3	15	90	10	52	39	3	0	57	1.14
29778060--29778129	29	2.5	28	86	4	95	32	17	20	30	1.95
29777994--29778103	56	2.0	57	83	7	145	40	12	20	27	1.88
29783717--29783772	16	3.5	16	75	0	58	30	16	10	42	1.82
29783705--29783789	32	2.7	32	78	14	111	32	20	8	38	1.82
29784296--29784527	40	5.8	40	80	6	233	34	16	26	22	1.95
29784315--29784527	79	2.7	77	84	7	259	33	15	27	23	1.95
29784917--29784957	20	2.0	20	85	4	55	39	26	2	31	1.70
29790790--29790840	21	2.5	20	77	3	57	31	1	5	60	1.31
29791539--29791600	21	3.0	21	86	9	90	17	30	25	25	1.97
29791531--29791602	21	3.4	21	83	7	83	18	30	25	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29791731--29791767	19	1.9	20	94	5	67	27	5	18	48	1.70
29793451--29793745	29	10.3	29	70	11	171	36	18	18	26	1.94
29793451--29793756	111	2.7	112	82	5	366	36	18	19	26	1.94
29793673--29793767	29	3.2	29	73	8	84	41	17	16	24	1.90
29799032--29799068	19	1.9	19	94	0	65	35	0	0	64	0.94
29802216--29802263	25	1.9	25	87	8	71	33	16	16	33	1.92
29809671--29809727	25	2.3	25	84	0	69	31	19	21	28	1.97
29812666--29812702	18	2.1	18	100	0	74	29	21	21	27	1.99
29829098--29829263	72	2.3	72	81	2	181	31	8	20	39	1.82
29829511--29829548	20	1.9	20	94	0	67	18	10	21	50	1.76
29832530--29832641	33	3.4	33	81	3	127	17	21	14	46	1.84
29832554--29832655	33	3.1	32	78	5	105	15	24	14	45	1.84
29842980--29843046	30	2.2	30	83	0	80	22	20	25	31	1.98
29846002--29846043	9	4.4	9	83	16	50	38	26	0	35	1.57
29849342--29849456	46	2.5	46	91	0	176	32	26	20	21	1.98
29849342--29849455	23	5.0	23	83	2	140	32	26	20	21	1.97
29851776--29851833	9	6.4	9	91	0	98	43	20	10	25	1.84
29851873--29851897	11	2.3	11	100	0	50	16	0	16	68	1.22
29853047--29853128	42	2.0	42	82	4	103	30	23	14	31	1.94
29853088--29853180	47	2.0	48	84	2	125	32	27	16	23	1.96
29855758--29855876	23	5.2	23	81	2	150	32	26	18	21	1.97
29855758--29855879	46	2.7	46	88	0	181	32	26	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29856105--29856143	18	2.2	17	86	13	53	46	20	0	33	1.51
29859501--29859547	3	15.7	3	95	0	85	2	31	0	65	1.04
29861356--29861384	3	9.7	3	100	0	58	34	0	31	34	1.58
29864548--29864584	6	6.2	6	93	0	56	48	40	0	10	1.38
29869088--29869121	16	2.1	16	89	10	52	32	0	5	61	1.20
29869404--29869466	27	2.3	27	81	13	76	36	4	1	57	1.30
29869671--29869721	19	2.7	19	82	8	61	43	1	1	52	1.23
29869801--29870114	164	2.0	160	85	7	431	45	3	6	45	1.45
29870220--29870252	12	2.6	13	85	9	50	54	0	0	45	0.99
29880070--29880249	29	6.2	29	75	1	119	24	24	13	37	1.91

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