genome.fa.s17.2.7.7.80.10.50.1000.104.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  104  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)
32921753--32921801	17	3.0	17	73	26	52	10	14	0	75	1.04
32930377--32930431	17	3.2	17	89	0	83	25	16	29	29	1.97
32936974--32937014	22	1.9	22	85	5	57	21	31	4	41	1.74
32946126--32946303	27	6.6	27	83	3	205	26	15	28	29	1.96
32946127--32946282	82	1.9	81	88	3	233	26	15	28	29	1.96
32946123--32946303	82	2.2	81	83	2	229	27	15	27	29	1.96
32953813--32953990	27	6.6	27	83	3	205	26	15	28	29	1.96
32953814--32953969	82	1.9	81	88	3	233	26	15	28	29	1.96
32953810--32953990	82	2.2	81	83	2	229	27	15	27	29	1.96
32980942--32980981	15	2.7	15	100	0	80	25	7	20	47	1.75
32987283--32987307	13	1.9	13	100	0	50	88	4	8	0	0.64
32988381--32988680	39	7.7	40	88	7	390	26	21	27	25	1.99
32996375--32996674	39	7.7	40	87	7	381	26	22	26	24	2.00
33000961--33001083	38	3.2	38	84	0	156	32	17	20	29	1.96
33000923--33001084	76	2.1	76	80	3	184	32	18	18	30	1.95
33004550--33004734	40	4.7	40	80	6	207	24	22	28	24	1.99
33004603--33004767	79	2.1	79	80	6	183	26	20	27	24	1.99
33010168--33010287	56	2.1	56	98	0	231	45	9	23	22	1.81
33011420--33011640	40	5.6	40	85	5	279	24	21	28	25	1.99
33018865--33018910	5	9.4	5	79	13	51	56	2	0	41	1.11
33021533--33021609	37	2.1	37	90	0	118	41	11	5	41	1.64
33026303--33026457	30	5.2	30	82	4	188	20	25	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33026303--33026457	60	2.6	60	91	2	240	20	25	18	34	1.96
33026448--33026645	30	6.7	30	81	4	161	19	25	12	42	1.86
33026448--33026518	29	2.4	30	88	2	99	19	28	8	43	1.80
33026417--33026711	119	2.5	119	87	1	412	21	25	13	40	1.90
33026627--33026699	30	2.4	30	90	0	119	23	23	12	41	1.88
33028150--33028217	14	4.9	15	74	18	67	41	0	7	51	1.30
33028150--33028221	16	5.1	15	74	22	75	40	0	6	52	1.28
33028150--33028229	28	3.0	25	79	16	74	38	0	6	55	1.25
33029209--33029295	43	2.0	43	84	4	113	31	17	26	25	1.97
33032285--33032325	21	1.9	21	85	5	55	75	0	17	7	1.02
33038044--33038082	14	2.7	15	80	15	55	30	17	10	41	1.83
33041475--33041509	11	3.3	11	88	4	54	20	5	0	74	1.02
33045096--33045237	42	3.4	42	88	3	205	30	21	21	26	1.98
33045673--33045712	12	3.3	12	89	0	53	5	35	17	42	1.71
33045697--33045782	21	4.1	21	81	0	91	3	38	20	37	1.70
33050230--33050368	7	19.0	7	67	16	59	33	42	1	22	1.62
33050230--33050348	22	5.7	21	77	16	122	33	42	1	21	1.63
33050256--33050296	15	2.7	15	88	3	64	31	41	2	24	1.68
33050238--33050310	38	1.9	37	88	2	110	31	43	2	21	1.67
33050231--33050365	22	6.1	21	73	14	85	32	43	1	22	1.62
33052230--33052427	41	4.8	41	77	5	204	33	23	24	17	1.96
33052230--33052427	82	2.4	82	90	0	306	33	23	24	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33052483--33052598	40	2.9	39	77	8	119	17	25	24	33	1.96
33054028--33054107	32	2.5	32	83	0	97	18	22	22	36	1.95
33067224--33067310	26	3.4	26	77	4	97	20	11	25	42	1.86
33068497--33068538	21	2.0	21	86	9	59	23	14	19	42	1.87
33072050--33072124	38	2.0	38	94	0	132	30	8	18	42	1.79
33075018--33075245	26	8.8	26	76	2	172	17	15	27	39	1.90
33075018--33075245	52	4.4	51	78	6	192	17	15	27	39	1.90
33080958--33080997	18	2.1	18	90	9	62	55	5	0	40	1.22
33082041--33082080	18	2.3	17	91	4	62	5	37	0	57	1.21
33096786--33096815	15	2.0	15	93	0	51	30	0	13	56	1.37
33097832--33097931	49	2.0	49	96	0	182	42	21	11	26	1.85
33106377--33106538	41	4.0	41	81	7	159	33	26	19	20	1.97
33106377--33106534	82	1.9	82	82	5	194	32	26	19	20	1.97
33107430--33107454	8	3.1	8	100	0	50	24	36	12	28	1.91
33125926--33125960	18	1.9	18	94	0	61	34	14	5	45	1.68
33126536--33126652	39	3.0	38	79	10	123	35	22	22	20	1.96
33126711--33127011	122	2.5	122	83	3	372	20	20	26	32	1.97
33126704--33127011	41	7.5	41	84	1	377	19	20	27	31	1.97
33129729--33129769	20	2.0	20	100	0	82	34	4	19	41	1.73
33131393--33131581	43	4.4	43	83	2	227	22	19	30	27	1.98
33133464--33133772	42	7.3	43	77	6	220	29	25	19	25	1.98
33133464--33133772	85	3.7	83	77	8	248	29	25	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33133630--33133772	44	3.3	43	84	4	166	26	25	18	29	1.98
33134140--33134190	21	2.4	21	86	0	75	1	45	17	35	1.60
33139459--33139493	15	2.2	16	85	15	54	48	11	0	40	1.39
33139465--33139493	15	1.9	15	100	0	58	48	13	0	37	1.43
33140117--33140154	20	1.9	20	94	0	67	57	7	0	34	1.28
33140355--33140390	15	2.3	16	90	4	56	36	2	0	61	1.11
33140526--33140581	7	8.0	7	79	0	58	46	39	0	14	1.44
33140526--33140579	14	3.9	14	80	0	72	48	37	0	14	1.45
33140527--33140581	28	2.0	28	96	0	101	47	40	0	12	1.42
33140660--33140735	21	3.6	21	76	16	84	52	28	0	18	1.45
33140661--33140701	15	2.8	15	79	17	50	53	29	0	17	1.44
33141354--33141746	114	3.4	114	90	1	608	23	20	19	36	1.95
33145037--33145218	91	2.0	91	100	0	364	37	21	17	23	1.94
33147706--33147780	12	6.3	11	72	15	51	30	5	2	61	1.32
33157330--33157360	3	10.3	3	100	0	62	67	0	0	32	0.91
33158038--33158075	20	1.9	19	89	5	58	13	0	15	71	1.16
33161369--33161393	8	3.1	8	100	0	50	24	24	0	52	1.48
33166171--33166206	6	6.0	6	100	0	72	50	16	0	33	1.46
33168868--33168907	6	6.8	6	82	5	55	47	0	2	50	1.14
33168878--33168912	18	1.9	18	94	0	61	48	0	2	48	1.16
33169054--33169088	18	2.0	17	94	5	61	40	0	2	57	1.14
33169379--33169447	26	2.5	28	86	6	97	52	8	1	37	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33169386--33169445	13	4.6	13	77	8	68	55	8	1	35	1.40
33171024--33171083	30	2.0	30	100	0	120	56	0	6	36	1.26
33171746--33171792	17	2.8	16	81	18	51	48	2	2	46	1.25
33174626--33174665	19	2.2	18	86	4	53	47	0	27	25	1.52
33186286--33186385	41	2.4	41	86	1	137	24	26	20	30	1.98
33199840--33199864	13	1.9	13	100	0	50	80	4	8	8	1.03
33199854--33199897	15	2.8	15	82	6	52	72	0	2	25	0.96
33200626--33200659	15	2.3	15	89	0	50	35	29	32	2	1.73
33207428--33207468	11	3.6	11	90	6	64	75	9	2	12	1.13
33207428--33207469	12	3.6	12	83	6	59	76	9	2	11	1.12
33207514--33207559	12	3.7	12	83	11	65	73	0	8	17	1.07
33207509--33207559	25	2.0	26	96	3	95	66	0	11	21	1.23
33207514--33207559	13	3.6	13	86	13	69	73	0	8	17	1.07
33208486--33208530	18	2.5	17	82	13	54	73	4	15	6	1.21
33208484--33208535	18	2.8	18	75	16	52	67	3	19	9	1.35
33215149--33215422	40	6.8	40	95	0	476	24	30	20	24	1.99
33218545--33218809	40	6.7	40	85	6	272	25	27	21	25	1.99
33218741--33218818	40	1.9	41	82	10	97	26	28	20	24	1.99
33237510--33237547	10	3.7	10	86	6	58	34	34	0	31	1.58
33237509--33237552	21	2.1	21	100	0	88	31	36	0	31	1.58
33238963--33239004	19	2.1	21	91	8	70	30	0	38	30	1.58
33240698--33240731	16	2.2	15	94	5	59	8	0	5	85	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33241046--33241108	21	3.0	21	85	2	81	31	3	31	33	1.74
33241057--33241089	11	3.1	11	82	8	50	33	0	36	30	1.58
33242188--33242229	10	4.3	10	78	6	50	28	11	23	35	1.91
33244113--33244175	24	2.7	22	81	13	65	7	17	1	73	1.16
33244114--33244166	21	2.5	21	80	14	56	7	18	0	73	1.06
33246345--33246403	20	3.0	20	71	0	55	23	22	15	38	1.92
33246355--33246414	30	2.0	31	83	3	77	18	23	16	41	1.90
33248563--33248627	22	2.9	22	88	2	85	35	33	3	27	1.73
33249677--33249728	27	1.9	27	96	0	95	44	15	19	21	1.87
33253255--33253309	21	2.4	22	76	14	58	25	16	16	41	1.88

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