genome.fa.s16.2.7.7.80.10.50.1000.26.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  26  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)
6898924--6898983	6	9.7	6	79	12	59	70	10	5	15	1.32
6899028--6899064	18	2.1	18	90	10	58	67	0	21	10	1.21
6899973--6900011	13	3.1	13	92	7	71	69	0	15	15	1.20
6899967--6900014	6	7.1	7	92	7	66	66	0	16	16	1.25
6901187--6901398	43	4.9	43	72	7	169	29	22	24	24	1.99
6901514--6901894	44	8.2	45	71	14	238	33	18	20	28	1.96
6901518--6901706	98	1.9	98	81	2	227	32	18	20	28	1.96
6901517--6902035	142	3.7	142	88	1	704	32	18	21	28	1.96
6901660--6901839	98	1.8	98	87	2	272	33	21	18	26	1.96
6902040--6902161	44	2.8	44	81	5	140	26	22	29	21	1.99
6905964--6906015	24	2.1	25	89	3	79	17	21	25	36	1.94
6906019--6906074	24	2.3	24	77	17	62	16	25	21	37	1.93
6914398--6914452	25	2.2	26	83	3	67	70	1	10	16	1.23
6921651--6921735	33	2.5	33	82	3	107	14	8	35	42	1.75
6936247--6936306	31	1.9	31	83	6	77	38	11	8	41	1.72
6936379--6936403	12	2.1	12	100	0	50	24	36	24	16	1.94
6936565--6936616	9	5.8	9	90	0	68	50	19	7	23	1.73
6936566--6936616	18	2.8	18	87	0	84	49	19	7	23	1.74
6936720--6936763	18	2.4	18	88	0	61	13	2	43	40	1.57
6948751--6948916	83	2.0	83	90	2	262	60	9	10	19	1.56
6950175--6950238	31	2.1	31	94	5	112	57	0	0	42	0.98
6950192--6950277	40	2.2	39	85	6	118	61	1	2	34	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6951856--6951915	21	3.0	20	76	9	68	60	0	1	38	1.07
6951879--6951948	11	6.6	11	76	15	67	60	0	1	38	1.06
6951932--6951976	16	2.7	17	79	6	56	60	0	0	40	0.97
6951856--6951965	41	2.7	41	86	9	154	61	0	1	36	1.06
6954302--6954404	10	10.4	10	71	14	54	37	2	1	57	1.25
6954332--6954395	20	3.3	19	71	20	60	43	3	1	51	1.26
6954521--6954558	16	2.4	16	86	8	51	47	0	0	52	1.00
6958105--6958242	40	3.5	40	76	8	140	31	26	16	25	1.96
6959134--6959165	4	7.8	4	93	6	55	0	25	0	75	0.81
6959137--6959164	13	2.2	13	100	0	56	0	21	0	78	0.75
6959134--6959201	17	3.8	17	76	17	66	0	20	7	72	1.09
6959204--6959278	7	10.6	7	79	16	66	49	2	1	46	1.24
6959213--6959307	42	2.3	41	81	15	117	47	3	1	48	1.24
6961237--6961302	13	5.1	13	74	7	62	34	4	21	39	1.74
6961239--6961302	26	2.5	26	77	10	76	34	4	21	39	1.75
6968842--6968866	3	8.3	3	100	0	50	68	0	32	0	0.90
6976861--6976947	17	5.1	17	70	19	56	54	2	3	40	1.30
6976819--6976964	68	2.1	69	81	6	172	54	3	4	38	1.37
6979906--6979944	21	1.9	21	89	5	62	38	33	2	25	1.70
6981691--6981885	102	1.9	103	87	1	284	31	14	24	28	1.95
6982956--6983037	27	3.1	27	87	3	114	45	14	10	29	1.79
6983154--6983194	18	2.3	18	83	8	57	17	41	26	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6987824--6987878	25	2.2	24	79	17	60	38	25	12	23	1.90
6990144--6990218	34	2.3	32	93	6	132	22	24	22	30	1.99
6990236--6990280	22	2.0	22	83	8	56	26	51	4	17	1.65
6990482--6990549	27	2.5	27	97	0	127	36	16	16	30	1.90
6992811--6992876	27	2.4	27	79	0	78	34	16	16	31	1.92
6998709--6998762	14	3.9	14	82	2	56	5	7	3	83	0.91
6998709--6998762	21	2.6	21	88	2	74	5	7	3	83	0.91
7000712--7000780	33	2.1	33	100	0	138	33	5	14	46	1.68
7000729--7000780	14	3.0	19	68	26	60	30	5	15	48	1.68
7000715--7000769	14	3.6	14	73	21	56	34	5	16	43	1.71
7000975--7001032	19	2.8	20	75	19	57	51	5	1	41	1.34
7010743--7010844	22	4.3	23	82	8	109	39	20	24	15	1.92
7010745--7010832	47	1.9	44	86	6	122	38	20	25	15	1.92
7011767--7011805	19	2.1	19	85	9	53	10	17	0	71	1.12
7013783--7013870	25	3.4	25	81	7	95	57	2	7	31	1.40
7013914--7013957	16	2.8	16	75	3	54	68	0	0	31	0.90
7015706--7016296	44	13.3	45	68	12	299	28	20	18	32	1.96
7015739--7016209	90	5.3	90	81	5	594	28	20	18	31	1.97
7015667--7016294	268	2.4	266	91	2	1001	28	20	18	31	1.97
7016338--7016472	44	3.1	44	65	19	109	27	24	22	25	2.00
7016306--7016876	87	6.5	87	86	1	732	22	23	24	28	1.99
7018116--7018151	6	5.7	6	90	9	54	13	16	0	69	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7018106--7018152	7	7.0	7	81	13	55	14	17	0	68	1.22
7018106--7018152	13	3.5	13	83	13	60	14	17	0	68	1.22
7018963--7019007	8	5.9	8	82	10	58	2	22	0	75	0.91
7018965--7019008	15	2.9	15	93	0	70	2	22	0	75	0.92
7025285--7025328	16	2.8	16	75	3	54	68	0	0	31	0.90
7031744--7031773	15	2.0	15	93	0	51	23	20	30	26	1.98
7032400--7032447	24	2.0	24	100	0	96	12	8	25	54	1.65
7036306--7036392	24	3.6	23	78	6	93	44	5	25	24	1.75
7036284--7036393	49	2.2	49	84	6	143	45	4	26	23	1.72
7036285--7036392	25	4.4	24	77	10	76	45	4	25	24	1.72
7036469--7036576	42	2.6	43	83	4	139	18	23	17	40	1.91
7043454--7043912	30	15.2	30	84	2	580	43	17	8	30	1.80
7043433--7043923	91	5.4	91	88	1	705	43	17	8	30	1.79
7050922--7051430	30	16.9	30	87	1	676	42	18	9	30	1.81
7050922--7051425	151	3.3	151	85	5	723	42	18	9	29	1.82
7050922--7051441	121	4.3	121	87	2	706	42	18	9	29	1.81
7053963--7054020	21	2.8	21	100	0	116	24	6	29	39	1.81
7057843--7057992	53	2.8	54	87	5	225	28	25	13	32	1.93
7060603--7060981	22	17.2	22	86	1	499	41	18	12	28	1.86
7060603--7060984	44	8.7	44	89	0	550	41	18	12	28	1.86
7066335--7066397	26	2.4	26	89	0	90	38	12	14	34	1.84
7070784--7070813	12	2.5	12	100	0	60	0	16	50	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7071458--7071501	13	3.3	14	87	6	56	20	20	11	47	1.80
7073270--7073306	18	2.1	18	100	0	74	16	16	16	51	1.77
7083301--7083357	16	3.7	15	76	15	55	63	3	8	24	1.39
7086103--7086217	50	2.3	50	80	5	142	21	26	15	36	1.93
7086118--7086317	75	2.7	74	79	7	192	19	25	19	36	1.95
7086211--7086361	49	3.1	50	74	13	125	18	26	22	32	1.97
7086103--7086344	25	9.8	24	76	7	119	19	26	19	34	1.96
7086194--7086344	74	2.0	74	81	5	171	19	25	21	33	1.97
7086200--7086361	25	6.6	25	78	7	118	18	25	22	33	1.97
7087288--7087377	43	2.1	43	95	0	162	17	25	30	26	1.98
7087418--7087570	83	1.9	82	84	4	209	22	25	23	28	1.99
7094805--7095155	81	4.3	82	83	1	429	47	12	11	28	1.77
7094805--7095155	162	2.2	163	85	2	481	47	12	11	28	1.77
7095283--7095414	50	2.7	50	82	5	162	53	6	1	38	1.37
7096481--7096508	5	5.6	5	100	0	56	21	0	0	78	0.75
7098159--7098187	5	5.8	5	100	0	58	20	0	0	79	0.74
7100118--7100161	24	1.9	22	86	9	61	59	27	13	0	1.35
7118732--7118816	40	2.1	40	82	4	100	38	2	7	51	1.42
7119564--7119606	18	2.4	18	80	3	52	53	2	18	25	1.56
7120073--7120766	280	2.4	280	88	3	1014	39	19	18	22	1.93
7120976--7121179	101	2.0	101	100	0	408	49	14	16	20	1.80
7123523--7123551	3	9.7	3	100	0	58	34	0	31	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7123550--7123628	3	26.3	3	100	0	158	34	0	0	65	0.93
7126338--7126634	50	5.8	51	81	7	302	21	26	22	28	1.99
7131164--7131468	152	2.0	152	99	0	601	39	12	19	29	1.88
7137484--7137561	31	2.6	29	77	4	75	21	20	7	50	1.73
7142256--7142307	24	2.2	24	85	0	68	34	3	9	51	1.53
7145240--7145309	23	3.0	22	74	22	70	34	0	4	61	1.16
7145247--7145301	28	2.0	28	89	7	85	34	0	3	61	1.13
7145694--7145746	27	2.0	26	85	3	70	18	3	9	67	1.33
7145709--7145746	13	2.8	14	80	19	53	21	5	7	65	1.38
7152749--7152846	49	2.0	50	87	2	144	47	6	16	29	1.70

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