genome.fa.s16.2.7.7.80.10.50.1000.24.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  24  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)
6396126--6396218	23	3.3	29	77	20	108	39	3	0	56	1.15
6396072--6396218	52	2.8	52	80	14	160	40	2	0	57	1.13
6400646--6400699	23	2.3	23	78	12	58	35	0	3	61	1.14
6400827--6400861	17	2.0	18	88	5	54	40	2	0	57	1.14
6402344--6402400	29	2.0	29	83	13	73	24	1	17	56	1.51
6406190--6406541	126	2.8	124	88	2	535	29	15	21	33	1.94
6409573--6409788	116	1.9	114	93	1	369	43	9	8	38	1.67
6409814--6410250	29	15.4	29	85	7	612	28	0	26	45	1.56
6409847--6409901	23	2.4	21	100	0	74	27	0	25	47	1.52
6409814--6410250	88	5.1	85	87	6	613	28	0	26	45	1.56
6409814--6410250	146	3.1	145	87	5	630	28	0	26	45	1.56
6409814--6410250	117	3.9	114	85	8	608	28	0	26	45	1.56
6410235--6410262	6	4.7	6	100	0	56	14	0	50	35	1.43
6410206--6410293	41	2.1	42	95	2	160	22	0	34	43	1.54
6410318--6410404	44	2.0	45	90	2	140	49	12	0	37	1.41
6410827--6410861	18	1.9	18	94	0	61	34	8	31	25	1.86
6416438--6416488	17	3.0	17	72	18	52	56	0	0	43	0.99
6416548--6416613	13	4.6	14	75	17	64	57	1	0	40	1.08
6416548--6416613	29	2.3	29	81	5	80	57	1	0	40	1.08
6416577--6416613	16	2.3	17	86	13	60	62	0	0	37	0.96
6416638--6416703	15	4.2	15	73	16	53	46	1	1	50	1.20
6419888--6419930	22	2.0	22	81	9	52	58	11	11	18	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6419926--6419973	21	2.2	22	77	3	53	64	14	12	8	1.49
6425436--6425468	16	2.1	16	94	0	57	33	0	36	30	1.58
6425447--6425541	45	2.1	44	90	1	145	33	5	28	32	1.80
6425703--6425737	18	2.0	17	88	5	52	54	0	0	45	0.99
6425661--6425733	27	2.7	27	76	8	76	52	2	0	45	1.15
6425839--6425880	17	2.5	17	85	14	52	54	0	0	45	0.99
6425846--6425880	18	2.0	17	88	5	52	54	0	0	45	0.99
6425622--6425892	143	1.9	147	93	4	478	46	3	2	46	1.34
6426046--6426092	17	2.9	16	78	18	53	46	2	6	44	1.40
6426065--6426098	17	2.0	17	94	0	59	50	0	5	44	1.26
6426131--6426324	92	2.1	91	88	5	284	46	4	4	44	1.41
6427727--6427753	11	2.5	11	100	0	54	51	18	7	22	1.70
6438317--6438381	32	2.0	32	100	0	130	27	18	15	38	1.91
6439622--6439658	11	3.4	11	84	0	56	40	0	16	43	1.48
6444140--6444171	3	10.7	3	93	0	55	62	0	0	37	0.95
6447532--6447558	2	13.5	2	100	0	54	48	0	0	51	1.00
6462034--6462071	16	2.2	17	90	9	60	52	2	0	44	1.14
6464917--6464956	20	2.0	20	90	0	62	27	10	12	50	1.72
6478297--6478343	21	2.2	22	92	3	78	21	19	38	21	1.94
6491693--6491833	72	2.0	72	90	2	221	41	16	14	27	1.88
6495226--6495257	5	6.2	5	96	3	55	78	0	3	18	0.89
6495794--6495819	13	2.0	13	100	0	52	84	0	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6509985--6510507	260	2.0	260	99	0	1028	31	11	22	35	1.89
6514495--6514527	2	16.5	2	100	0	66	48	0	51	0	1.00
6515728--6515758	16	1.9	16	93	0	53	32	3	9	54	1.49
6515777--6515816	21	1.9	21	84	0	53	45	5	5	45	1.47
6515959--6516011	28	2.0	26	81	7	61	35	5	3	54	1.42
6516525--6516642	34	3.5	34	83	2	148	40	0	17	41	1.50
6516742--6517268	126	4.2	126	87	1	696	38	15	17	28	1.91
6516742--6517268	253	2.1	252	87	0	739	38	15	17	28	1.91
6519219--6519275	21	2.7	21	83	0	87	15	28	17	38	1.91
6519155--6519290	42	3.2	42	81	6	159	16	23	18	41	1.89
6523533--6523578	18	2.6	18	89	0	65	43	8	23	23	1.82
6526581--6526650	22	3.1	22	76	11	79	42	1	0	55	1.08
6526616--6526650	11	3.2	11	87	0	52	45	0	0	54	0.99
6535637--6536366	365	2.0	365	99	0	1442	36	23	15	25	1.93
6542904--6542928	6	4.2	6	100	0	50	16	0	48	36	1.46
6544841--6544865	8	3.1	8	100	0	50	16	0	0	84	0.63
6548262--6548303	13	3.5	13	75	18	54	38	0	11	50	1.40
6548259--6548303	23	2.0	23	100	0	90	40	0	11	48	1.39
6557073--6557098	12	2.2	12	100	0	52	34	7	30	26	1.85
6563849--6563974	28	4.5	28	94	1	218	26	11	28	33	1.92
6565820--6565919	49	2.0	49	100	0	200	38	18	20	24	1.93
6570117--6570164	25	1.9	25	86	0	69	16	27	27	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6582536--6582691	41	3.8	41	97	0	285	29	21	22	26	1.99
6582906--6582969	33	2.0	32	90	3	101	26	9	25	39	1.86
6582913--6582986	33	2.3	33	80	2	87	28	8	25	37	1.84
6593102--6593131	6	5.0	6	91	0	51	13	3	0	83	0.77
6594627--6594685	31	1.9	31	92	0	100	27	13	6	52	1.65
6598425--6598469	3	15.3	3	95	4	83	31	0	0	68	0.89
6598641--6598667	11	2.5	11	100	0	54	0	14	0	85	0.61
6610533--6610668	45	3.0	46	70	4	134	32	21	23	22	1.98
6610542--6610714	92	1.9	89	90	3	265	32	20	23	23	1.98
6612494--6612526	3	11.3	3	93	6	59	30	0	0	69	0.88
6619497--6619590	3	30.7	3	78	14	86	65	2	5	26	1.25
6627546--6627604	29	2.0	29	100	0	118	37	8	13	40	1.75
6636117--6636297	30	6.1	30	84	8	253	37	10	16	36	1.83
6636111--6636290	59	3.0	59	98	0	342	38	11	15	35	1.82
6636117--6636297	89	2.0	89	86	7	251	37	10	16	36	1.83
6643726--6643758	18	1.9	17	88	11	50	48	0	21	30	1.50
6649501--6649531	12	2.6	12	94	0	53	25	38	25	9	1.86
6650557--6650632	21	3.6	21	80	5	82	35	23	22	18	1.96
6650970--6651009	16	2.5	16	84	11	55	25	22	0	52	1.47
6651431--6651516	5	17.2	5	100	0	172	60	0	0	39	0.97
6655675--6655732	29	2.0	29	80	12	66	41	27	1	29	1.66
6656288--6656360	33	2.2	33	85	9	96	54	6	0	38	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6663359--6663396	18	2.0	20	90	10	62	76	5	0	18	0.97
6663443--6663478	15	2.4	15	90	0	54	36	38	8	16	1.79
6680481--6680513	17	2.0	17	88	5	50	45	21	0	33	1.52
6681257--6681434	40	4.4	41	75	11	134	32	26	15	25	1.96
6684341--6684386	9	5.1	9	91	0	74	45	10	10	32	1.74
6684422--6684463	21	2.0	21	86	9	59	21	33	2	42	1.66
6686019--6686066	22	2.2	23	88	7	73	68	6	2	22	1.23
6687422--6687513	43	2.2	42	84	5	123	27	29	19	23	1.98
6687613--6687765	43	3.6	43	90	1	236	26	31	16	25	1.97
6687613--6687790	85	2.1	86	84	1	232	25	29	16	28	1.97
6691373--6691436	22	3.0	21	79	6	65	68	7	1	21	1.23
6691602--6691628	5	5.4	5	100	0	54	37	0	0	62	0.95
6694187--6694238	7	7.6	7	89	4	79	34	51	0	13	1.41
6694290--6694341	7	7.6	7	89	4	61	34	48	0	17	1.48
6694780--6694930	41	3.7	41	85	1	205	29	27	21	21	1.99
6694970--6695103	40	3.3	40	80	2	126	18	19	23	38	1.93
6696225--6696270	20	2.2	21	92	3	76	69	6	10	13	1.35
6696362--6696418	20	2.8	20	81	2	69	57	14	17	10	1.64
6696360--6696438	21	3.9	21	78	8	74	59	10	16	13	1.60
6697359--6697404	17	2.8	17	75	15	51	60	4	2	32	1.28
6699677--6699720	18	2.4	18	88	0	70	9	6	47	36	1.62
6702578--6702675	30	3.2	30	71	7	81	32	6	8	53	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6704542--6705391	114	7.4	114	92	1	1362	35	18	20	25	1.96
6704542--6705391	229	3.7	228	93	0	1380	35	18	20	25	1.96
6706100--6706142	21	2.0	22	90	4	70	23	2	25	48	1.62
6706238--6706269	7	4.6	7	92	0	55	3	0	50	46	1.17
6706223--6706282	21	2.9	21	76	0	66	15	3	36	45	1.62
6706408--6706441	15	2.2	16	89	5	52	58	0	2	38	1.13
6706642--6706679	20	1.9	20	94	0	67	34	0	7	57	1.28
6706977--6707025	23	2.1	23	84	0	62	26	2	18	53	1.56
6707199--6707238	12	3.2	12	85	3	53	15	47	2	35	1.58
6708342--6708400	26	2.3	26	96	0	109	38	15	3	42	1.63

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