genome.fa.s17.2.7.7.80.10.50.1000.132.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  132  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)
41003286--41003325	16	2.5	16	92	8	64	27	5	32	35	1.79
41004223--41004253	16	1.9	16	93	0	53	51	0	0	48	1.00
41008189--41008248	26	2.3	27	85	2	77	46	11	10	31	1.73
41013341--41013370	3	10.3	3	92	7	53	36	0	0	63	0.95
41017887--41017933	3	15.7	3	95	0	85	31	2	0	65	1.04
41019868--41019892	2	12.5	2	100	0	50	48	0	0	52	1.00
41027540--41027621	2	41.0	2	100	0	164	0	50	0	50	1.00
41039942--41040021	23	3.3	23	68	21	72	26	15	27	31	1.95
41039854--41040044	101	1.9	102	87	3	287	25	14	28	31	1.95
41039854--41040044	51	3.8	51	88	3	287	25	14	28	31	1.95
41040055--41040142	46	2.0	44	84	8	115	25	17	23	34	1.96
41045412--41045443	17	1.9	16	93	6	55	28	0	6	65	1.16
41045698--41045731	14	2.4	14	90	0	50	32	0	2	64	1.08
41045863--41045895	15	2.3	15	89	5	50	18	6	6	69	1.30
41053491--41053523	17	1.9	17	93	0	57	75	9	0	15	1.03
41054806--41054846	18	2.3	19	83	12	59	21	4	2	70	1.18
41054815--41054852	18	2.1	18	90	0	58	23	5	2	68	1.23
41054864--41054914	3	16.7	3	76	11	50	33	7	0	58	1.27
41060692--41060756	19	3.2	20	86	10	71	35	18	7	38	1.80
41060678--41060749	19	3.5	20	80	15	83	38	16	8	36	1.79
41060704--41060756	19	2.7	19	91	5	79	37	15	9	37	1.79
41061125--41061269	44	3.3	43	67	7	121	20	24	31	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41061116--41062150	88	11.8	88	85	1	1180	22	24	25	27	2.00
41061169--41061750	44	13.3	44	64	8	209	23	26	24	26	2.00
41062007--41062145	44	3.2	43	64	4	107	20	21	29	28	1.98
41071275--41071300	4	6.5	4	100	0	52	26	23	0	50	1.50
41075131--41075180	22	2.2	24	82	7	59	20	6	6	68	1.33
41075660--41076062	110	3.7	110	92	2	645	30	16	18	34	1.93
41080977--41081023	25	2.0	24	87	8	69	85	6	2	6	0.82
41081140--41081262	43	2.9	43	84	7	144	31	15	26	26	1.96
41082437--41082818	50	7.6	50	71	5	243	32	24	19	22	1.97
41082375--41082818	100	4.4	100	87	0	611	32	24	19	23	1.97
41085577--41085986	110	3.8	110	92	2	659	30	17	18	34	1.94
41090785--41090856	30	2.4	29	81	6	83	61	2	2	33	1.25
41090805--41090906	11	9.6	11	69	22	67	58	1	2	36	1.24
41090788--41090958	42	4.4	37	85	12	193	62	1	2	33	1.15
41090801--41090872	30	2.4	30	85	0	108	59	2	2	34	1.26
41090865--41090965	37	2.8	36	88	7	143	60	0	1	37	1.08
41097081--41097211	56	2.3	57	84	2	165	45	0	4	49	1.28
41097175--41097224	26	2.0	26	88	4	75	52	4	0	44	1.20
41097384--41097435	16	3.2	16	81	10	70	30	25	3	40	1.73
41102202--41103322	228	4.9	228	93	0	1724	28	29	22	19	1.98
41102202--41103565	228	6.0	227	89	1	1379	28	27	23	20	1.99
41102202--41103565	684	2.0	684	83	1	1728	28	27	23	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41105836--41105862	3	9.0	3	100	0	54	66	0	0	33	0.92
41118122--41118183	29	2.1	29	85	5	81	32	9	8	50	1.65
41119391--41119435	20	2.2	20	92	7	74	46	0	13	40	1.43
41119539--41119591	3	17.7	3	76	0	52	64	3	5	26	1.33
41122350--41122403	16	3.4	16	94	0	90	33	0	35	31	1.58
41122382--41122476	45	2.1	44	88	1	136	32	6	27	33	1.82
41122636--41122670	18	2.0	17	88	5	52	54	0	0	45	0.99
41123306--41123341	6	6.0	6	100	0	72	16	33	16	33	1.92
41128845--41128887	19	2.4	18	85	11	54	32	11	4	51	1.59
41130280--41130316	13	2.8	14	80	12	51	29	2	0	67	1.04
41131702--41131850	43	3.5	43	94	3	264	28	30	20	21	1.98
41131680--41131850	86	2.0	87	91	3	283	26	28	19	24	1.99
41131820--41131880	30	2.0	30	100	0	122	32	36	14	16	1.89
41131777--41131912	73	1.9	73	93	0	236	28	32	18	20	1.96
41131850--41132026	43	4.1	42	78	11	180	25	30	22	22	1.99
41131734--41131967	116	2.0	116	88	4	346	29	30	20	20	1.97
41132345--41132411	21	3.2	21	95	0	116	7	44	14	32	1.74
41132467--41132528	21	3.0	21	85	4	90	9	43	11	35	1.73
41138090--41138270	16	12.2	16	71	23	107	38	0	13	46	1.48
41138090--41138270	31	6.1	30	71	25	120	38	0	13	46	1.48
41138093--41138255	40	4.2	40	80	14	182	38	0	13	47	1.48
41138129--41138188	9	7.2	9	75	17	67	36	0	16	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41138133--41138312	91	2.0	93	92	4	303	38	1	12	47	1.48
41139632--41139675	12	3.7	12	87	0	70	0	56	0	43	0.99
41139632--41139675	6	7.3	6	84	0	61	0	56	0	43	0.99
41139735--41139784	25	2.0	25	88	0	73	4	30	4	62	1.32
41143113--41143165	15	3.2	15	80	17	52	54	1	1	41	1.22
41143196--41143234	20	2.0	20	94	0	69	48	0	2	48	1.15
41143333--41143372	20	2.0	20	90	0	62	50	12	10	27	1.72
41143321--41143387	34	1.9	35	90	3	109	46	13	8	31	1.74
41143356--41143395	14	2.9	14	84	0	53	42	17	7	32	1.77
41145815--41146063	74	3.4	74	92	1	394	34	18	17	29	1.94
41147141--41147231	41	2.2	41	84	7	114	16	26	25	31	1.96
41147202--41147410	41	5.1	41	85	3	260	32	24	23	19	1.98
41147540--41147630	41	2.2	40	81	11	96	16	24	21	37	1.94
41150525--41150571	22	2.1	22	88	0	67	68	2	4	25	1.19
41151432--41151477	16	2.8	17	83	6	58	60	0	0	39	0.97
41152580--41152740	85	1.9	85	80	12	188	25	21	23	29	1.99
41152804--41153090	51	5.8	50	73	11	216	29	25	17	27	1.97
41152851--41153135	46	6.0	46	74	8	230	28	24	17	29	1.97
41152807--41153141	97	3.5	97	84	3	397	28	25	17	28	1.98
41153441--41153496	24	2.3	24	90	0	94	30	25	10	33	1.90
41153991--41154017	13	2.1	13	100	0	54	85	0	0	14	0.61
41161549--41161615	22	3.2	22	66	30	65	28	25	5	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41161535--41161618	40	2.1	40	100	0	168	28	25	4	41	1.75
41164663--41164717	3	18.7	3	81	3	67	65	1	3	29	1.20
41166052--41166084	11	2.8	12	86	9	50	6	0	15	78	0.93
41172870--41172963	48	2.0	48	87	8	138	18	13	27	40	1.88
41185442--41185500	28	2.2	29	79	14	72	55	1	3	38	1.26
41185651--41185733	3	27.7	3	76	9	71	60	1	2	36	1.18
41189230--41189277	21	2.3	21	88	0	69	25	22	22	29	1.99
41190673--41190841	83	2.0	83	90	0	266	34	13	28	23	1.93
41199392--41199497	42	2.5	42	89	0	158	17	3	47	31	1.66
41199392--41199515	42	3.0	41	81	11	130	20	4	44	29	1.72
41205456--41205496	22	1.9	21	85	5	55	7	26	12	53	1.64
41218712--41218810	47	2.1	47	85	9	130	61	4	3	31	1.29
41223518--41223567	26	1.9	26	95	0	91	30	32	24	14	1.94
41223619--41223670	26	2.0	26	96	0	95	28	34	23	13	1.92
41223485--41223747	102	2.6	102	90	1	402	30	30	19	19	1.97
41224082--41224139	30	1.9	30	85	0	80	29	24	6	39	1.81
41224075--41224139	30	2.2	29	83	5	76	29	27	6	36	1.81
41227266--41227769	47	10.6	49	91	3	775	33	8	29	29	1.86
41227266--41227769	96	5.3	96	92	2	831	33	8	29	29	1.86
41230219--41230245	14	1.9	14	100	0	54	59	14	14	11	1.62
41244855--41245053	46	4.3	46	88	0	290	46	18	12	23	1.83
41244854--41245053	92	2.2	92	92	0	328	46	18	12	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41245027--41245075	24	2.0	24	96	0	89	48	16	14	20	1.80
41244975--41245117	68	2.1	69	89	2	216	47	18	11	22	1.81
41244935--41245167	114	2.0	115	93	1	396	46	19	11	23	1.81
41245045--41245169	46	2.8	46	85	4	175	45	20	12	22	1.83
41245774--41245930	44	3.6	42	81	6	181	32	26	15	24	1.96
41247440--41247483	17	2.4	19	77	18	56	31	6	13	47	1.69
41261612--41261662	14	3.7	14	80	10	52	15	9	0	74	1.06
41276335--41276448	56	2.0	56	98	0	219	34	14	7	43	1.74
41276809--41276856	21	2.5	19	86	10	62	41	22	2	33	1.66
41276866--41276909	19	2.5	17	85	10	61	40	34	0	25	1.56

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