genome.fa.s20.2.7.7.80.10.50.1000.15.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  15  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)
4989860--4990150	123	2.4	122	81	5	327	33	30	17	18	1.94
5003925--5004115	94	2.0	94	91	0	310	31	12	14	41	1.83
5004111--5004200	40	2.2	42	82	7	105	27	13	22	36	1.91
5004131--5004268	41	3.4	39	73	16	111	23	14	26	34	1.94
5004127--5004285	83	1.9	82	82	10	198	24	13	27	33	1.93
5004912--5005022	46	2.4	46	87	1	159	27	11	18	41	1.86
5004952--5005020	23	3.0	22	80	13	77	30	10	17	42	1.82
5004912--5005023	24	4.9	23	76	15	106	28	11	18	41	1.86
5005792--5005840	13	3.8	13	88	0	80	26	46	18	8	1.76
5006999--5007054	26	2.2	26	83	6	69	37	25	25	12	1.91
5009198--5009243	21	2.2	21	84	7	58	52	2	0	45	1.13
5009210--5009285	29	2.6	27	76	13	80	51	3	2	42	1.34
5009890--5009947	25	2.3	25	93	0	98	32	17	25	24	1.96
5010995--5011054	30	2.0	30	83	6	77	21	16	0	61	1.34
5015783--5015846	28	2.3	28	86	7	87	56	23	0	20	1.42
5022252--5022330	32	2.5	32	93	2	142	6	41	34	17	1.75
5022387--5022418	9	3.6	9	91	0	55	28	0	3	68	1.04
5022357--5022480	41	3.2	38	78	16	119	33	3	0	62	1.17
5022373--5022498	41	3.0	41	81	10	139	36	3	1	58	1.23
5025224--5025321	19	4.8	20	68	10	65	62	1	2	34	1.14
5025209--5025329	31	4.1	29	75	11	113	65	0	1	32	1.08
5025224--5025270	10	4.7	10	78	7	51	63	0	2	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5025298--5025339	18	2.3	19	91	4	68	69	4	2	23	1.20
5025516--5025742	10	24.9	9	64	27	54	29	4	1	64	1.22
5025516--5025601	39	2.2	38	82	8	102	32	5	1	60	1.28
5025548--5025648	29	3.5	28	74	16	100	28	6	1	62	1.32
5025636--5025684	13	4.1	13	72	20	52	20	4	0	75	0.96
5025635--5025694	22	2.7	22	94	2	102	25	3	1	70	1.12
5025608--5025672	22	3.2	19	70	23	51	23	6	1	69	1.20
5025655--5025728	32	2.3	33	79	6	89	33	1	1	63	1.11
5025677--5025729	21	2.5	21	84	9	72	37	0	1	60	1.08
5037616--5037800	46	4.0	46	95	0	307	34	10	26	28	1.90
5052242--5052304	27	2.3	27	80	2	72	46	0	15	38	1.47
5052274--5052397	34	3.7	33	80	6	133	38	0	16	44	1.53
5052453--5052712	127	2.0	127	95	0	466	35	16	18	29	1.93
5053826--5053869	18	2.4	18	81	7	54	43	6	25	25	1.79
5054456--5054480	7	3.6	7	100	0	50	60	12	0	28	1.32
5056794--5056849	28	2.0	28	96	0	103	44	0	30	25	1.54
5063891--5063945	26	2.1	26	100	0	110	18	14	12	54	1.71
5068568--5068607	20	2.0	20	100	0	80	45	20	20	15	1.86
5078177--5078248	32	2.2	33	83	9	94	44	13	8	33	1.74
5079398--5079426	11	2.7	11	94	5	51	41	0	0	58	0.98
5079397--5079457	20	3.1	20	81	6	63	45	0	0	54	1.00
5079428--5079463	17	2.1	18	89	5	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5079461--5079504	18	2.5	17	82	13	54	40	0	6	52	1.28
5081247--5081286	22	1.9	21	85	10	55	47	2	0	50	1.14
5081387--5081473	40	2.2	40	81	6	97	35	2	8	54	1.43
5088480--5088551	36	2.0	36	100	0	144	41	16	8	33	1.78
5091790--5091909	59	2.0	59	100	0	240	28	8	6	56	1.54
5092340--5092374	18	1.9	18	88	11	54	20	0	0	80	0.72
5119262--5119298	9	4.1	9	92	0	65	29	10	13	45	1.77
5121960--5122153	96	2.0	96	98	0	379	26	14	24	33	1.95
5122345--5122412	11	6.4	11	72	17	54	35	4	0	60	1.17
5122337--5122459	41	2.8	45	83	10	148	34	2	0	63	1.08
5122410--5122434	11	2.3	11	100	0	50	16	0	0	84	0.63
5122423--5122484	31	2.0	31	87	6	90	45	0	0	54	0.99
5128060--5128097	6	6.5	6	90	6	60	34	2	63	0	1.09
5130025--5130058	3	11.0	3	87	6	50	35	32	2	29	1.73
5135044--5135080	9	4.1	9	89	0	56	45	13	13	27	1.81
5135294--5135353	30	2.0	31	83	9	79	20	38	0	41	1.52
5135608--5135636	9	3.2	9	100	0	58	31	0	0	68	0.89
5147827--5147881	21	2.6	21	88	5	76	45	1	29	23	1.63
5147830--5147883	22	2.4	21	77	20	56	46	1	27	24	1.63
5148448--5148481	16	2.2	16	89	5	52	11	26	0	61	1.30
5148715--5148766	21	2.5	19	71	17	50	44	5	1	48	1.38
5161392--5161436	20	2.3	20	88	3	65	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5161457--5161501	18	2.4	18	88	3	63	62	2	0	35	1.08
5167122--5167187	29	2.2	31	83	5	82	56	3	6	34	1.40
5167487--5167525	21	1.9	20	94	5	69	15	5	0	79	0.90
5168775--5168822	25	1.9	25	83	8	62	58	0	8	33	1.28
5168775--5168823	26	1.9	25	83	4	62	59	0	8	32	1.27
5169212--5169238	5	5.4	5	100	0	54	18	0	0	81	0.69
5169311--5169348	18	2.1	19	85	5	51	34	15	0	50	1.45
5174790--5174843	21	2.5	22	80	14	60	29	1	1	66	1.12
5175606--5175674	36	1.9	36	85	5	95	55	4	7	33	1.47
5181716--5181741	2	13.0	2	100	0	52	50	0	50	0	1.00
5187902--5188040	46	3.0	46	90	2	217	30	26	7	35	1.84
5205935--5205986	24	2.2	24	89	0	77	50	9	3	36	1.54
5210367--5210418	24	2.2	24	85	0	68	50	7	3	38	1.50
5213425--5213485	27	2.3	27	100	0	122	24	3	18	54	1.58
5219128--5219174	21	2.2	22	84	3	60	42	0	2	55	1.12
5219476--5219513	3	12.7	3	100	0	76	0	31	0	68	0.90
5222084--5222130	3	15.7	3	95	0	85	65	0	2	31	1.04
5237370--5237405	17	2.1	17	100	0	72	27	5	19	47	1.72
5259581--5259649	34	2.1	33	91	2	111	62	14	10	13	1.55
5264607--5264660	26	2.1	26	100	0	108	22	22	11	44	1.84
5276777--5276825	22	2.2	22	77	0	53	20	10	8	61	1.53
5280516--5280560	20	2.2	20	84	0	54	42	24	4	28	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5282836--5282866	15	2.1	15	100	0	62	19	19	0	61	1.35
5283692--5283831	40	3.5	40	80	6	169	30	24	18	26	1.98
5283701--5283832	41	3.3	40	79	11	155	32	24	17	25	1.97
5284811--5284858	19	2.5	20	86	6	64	39	10	4	45	1.58
5290062--5290126	34	1.9	34	84	12	89	23	9	1	66	1.29
5294047--5294093	22	2.2	20	81	7	58	34	0	2	63	1.06
5296271--5296318	17	2.5	20	70	19	57	39	18	12	29	1.88
5300925--5300963	19	2.0	21	85	10	55	17	0	15	66	1.25
5301015--5301051	3	12.3	3	100	0	74	32	0	0	67	0.91
5301868--5301905	18	2.1	18	90	0	58	36	7	42	13	1.73
5306810--5306865	27	2.1	27	93	0	94	8	32	14	44	1.76
5307649--5307802	5	32.6	5	71	18	59	0	32	0	67	0.91
5307600--5307810	36	5.6	36	75	15	139	0	33	0	66	0.92
5307658--5307801	4	35.0	4	74	20	79	0	31	0	68	0.90
5307656--5307800	13	11.3	13	68	24	67	0	31	0	68	0.89
5307624--5307758	6	22.0	6	67	15	62	0	29	0	70	0.88
5307590--5307800	80	2.7	79	82	10	274	0	31	0	68	0.90
5307919--5307990	28	2.5	28	86	6	101	48	0	8	43	1.33
5307919--5307987	30	2.4	30	88	7	99	50	0	5	43	1.26
5311421--5311466	23	2.0	23	91	0	74	34	4	4	56	1.39
5312537--5312607	36	2.0	36	81	10	83	56	5	8	29	1.52
5314182--5314239	20	2.9	21	80	10	59	37	1	3	56	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5317991--5318031	18	2.4	18	88	8	59	70	7	4	17	1.28
5318013--5318064	24	2.0	25	82	10	61	71	5	1	21	1.17
5339203--5339274	31	2.3	31	100	0	144	54	16	13	15	1.72
5345930--5346786	150	5.7	150	91	1	1263	38	16	7	37	1.77
5345930--5346790	301	2.9	299	89	2	1271	38	16	7	37	1.76
5346687--5346891	109	1.9	107	85	4	286	37	17	7	37	1.79
5351464--5351617	42	3.7	42	82	0	182	44	18	19	17	1.87
5351464--5351515	21	2.5	21	77	0	59	44	21	21	13	1.86
5351478--5351545	21	3.2	21	67	8	57	45	17	19	17	1.86
5353243--5353269	14	1.9	14	100	0	54	59	7	0	33	1.25

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