genome.fa.s9.2.7.7.80.10.50.1000.178.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: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Length:  77927517

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   

This is table  178  of  250  ( 29906 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)
56538143--56538179	19	1.9	19	89	10	58	43	0	0	56	0.99
56538370--56538399	3	10.0	3	100	0	60	33	0	0	66	0.92
56538746--56538833	42	2.1	42	95	0	158	36	4	19	39	1.72
56539177--56539209	3	11.0	3	100	0	66	66	0	0	33	0.92
56539398--56539435	20	1.9	20	89	10	60	55	2	0	42	1.14
56545593--56546140	271	2.0	271	97	0	1024	27	20	13	38	1.90
56547795--56547833	20	2.0	20	90	10	62	41	0	2	56	1.13
56547844--56547880	18	1.9	18	89	10	56	54	0	5	40	1.24
56548021--56548052	3	10.7	3	100	0	64	34	0	0	65	0.93
56548208--56548238	15	2.1	15	93	0	53	83	9	6	0	0.79
56548399--56548478	40	2.0	40	90	0	124	33	2	17	46	1.62
56567510--56567783	46	6.0	46	88	0	370	40	14	24	20	1.89
56571606--56571834	35	6.1	39	68	17	137	33	20	18	27	1.96
56571622--56571798	75	2.4	75	90	3	268	32	21	18	28	1.96
56572690--56572721	16	2.0	16	100	0	64	0	18	0	81	0.70
56575922--56576017	32	3.0	32	96	0	174	38	19	17	23	1.93
56576876--56576917	13	2.9	14	80	13	50	54	0	0	45	0.99
56576880--56576916	16	2.3	16	86	13	58	59	0	0	40	0.97
56576949--56577005	15	3.5	15	71	17	51	49	1	1	47	1.22
56577461--56577490	14	2.1	14	93	0	51	46	10	0	43	1.37
56578227--56578260	3	11.3	3	100	0	68	67	0	0	32	0.91
56578913--56578988	38	2.0	38	97	0	143	46	18	5	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56584282--56584349	31	2.3	29	83	14	79	67	11	0	20	1.21
56586118--56586155	20	2.0	20	89	5	60	44	0	2	52	1.14
56588761--56588812	16	3.2	16	97	0	95	28	0	36	34	1.58
56589013--56589054	15	2.7	16	82	14	52	52	2	0	45	1.13
56589022--56589063	15	2.9	15	82	10	52	52	0	0	47	1.00
56589053--56589285	54	4.1	54	74	16	236	47	7	1	42	1.42
56589132--56589183	15	3.6	15	80	12	56	53	1	0	44	1.11
56589016--56589231	120	1.8	120	100	0	432	49	6	1	42	1.38
56592704--56592947	126	1.9	126	95	0	443	38	15	16	28	1.90
56593084--56593130	17	2.8	17	78	18	53	65	6	2	25	1.27
56593809--56593881	18	4.0	18	71	16	69	16	0	56	27	1.41
56593827--56593926	29	3.2	29	84	11	101	16	0	52	32	1.44
56593823--56593897	37	2.0	37	100	0	150	16	0	54	29	1.42
56602686--56602731	23	2.0	23	100	0	92	47	4	13	34	1.62
56606676--56606741	30	2.4	27	83	16	98	18	22	33	25	1.97
56606752--56606802	25	2.0	25	100	0	102	23	17	27	31	1.97
56606713--56606841	64	2.0	64	90	0	204	22	20	29	27	1.99
56606777--56606910	39	3.4	39	91	0	214	20	23	30	25	1.99
56629354--56629396	9	5.2	8	78	15	52	37	0	0	62	0.95
56635721--56635842	14	7.6	14	66	29	59	2	32	19	45	1.64
56635768--56635826	19	3.4	19	70	29	67	3	33	20	42	1.69
56635719--56635840	33	3.7	33	97	0	226	2	32	20	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56640068--56640631	48	12.0	48	89	5	877	35	6	26	31	1.82
56640392--56640462	34	2.1	34	97	0	133	36	7	23	32	1.82
56640248--56640606	178	2.0	178	96	0	664	35	6	25	32	1.81
56640200--56640631	226	1.9	226	95	0	783	35	6	26	31	1.82
56640158--56640667	274	1.9	273	90	1	824	35	7	26	31	1.83
56642084--56642120	16	2.5	15	87	12	58	43	10	18	27	1.83
56644907--56645023	31	3.8	30	86	7	164	25	28	19	26	1.99
56644999--56645127	50	2.5	51	92	2	215	24	24	16	34	1.95
56650172--56650233	31	2.0	31	100	0	124	25	32	12	29	1.93
56651534--56651583	23	2.2	23	100	0	100	12	34	8	46	1.70
56652673--56652698	12	2.2	12	100	0	52	92	0	7	0	0.39
56658488--56658526	20	2.0	20	85	10	53	25	0	12	61	1.31
56667932--56667964	16	2.1	16	100	0	66	36	0	33	30	1.58
56669801--56669884	9	9.1	9	70	21	50	60	1	2	35	1.17
56674998--56675093	46	2.1	46	100	0	192	37	16	20	25	1.93
56688132--56688199	16	4.2	16	94	0	109	27	0	35	36	1.58
56688180--56688274	45	2.1	44	84	1	118	34	6	25	33	1.81
56688436--56688470	18	2.0	17	88	5	52	54	0	0	45	0.99
56688394--56688466	27	2.7	27	76	8	76	52	2	0	45	1.15
56688580--56688614	18	2.0	17	88	5	52	54	0	0	45	0.99
56688355--56688626	144	1.9	147	93	3	478	46	3	2	47	1.35
56688598--56688780	53	3.1	58	67	22	153	49	6	2	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56688682--56688734	16	3.4	17	73	21	53	56	0	0	43	0.99
56688569--56688854	119	2.4	120	94	1	495	50	4	2	43	1.34
56688608--56688794	60	3.1	59	66	13	157	49	6	2	41	1.42
56688574--56688853	59	4.7	58	65	16	162	50	4	2	42	1.35
56695030--56695102	25	2.8	26	72	8	67	54	2	2	39	1.29
56697682--56697734	23	2.3	23	83	6	63	15	22	24	37	1.92
56698259--56698490	117	2.0	117	93	0	401	27	9	23	40	1.85
56698952--56698983	6	5.3	6	100	0	64	34	0	0	65	0.93
56702174--56702219	21	2.2	21	84	0	56	39	6	21	32	1.79
56703694--56703756	31	2.0	31	84	6	83	41	3	25	30	1.71
56704180--56704205	12	2.2	12	100	0	52	84	7	7	0	0.77
56704322--56704365	18	2.4	18	85	7	54	86	2	6	4	0.77
56704322--56704362	12	3.4	12	82	0	55	87	2	4	4	0.72
56704903--56704949	24	2.0	24	82	0	58	57	4	6	31	1.43
56705286--56705315	9	3.2	9	90	9	51	76	0	0	23	0.78
56705287--56705312	10	2.6	10	100	0	52	84	0	0	15	0.62
56708172--56708347	46	3.8	45	78	12	187	29	27	21	21	1.98
56708179--56708351	93	1.9	93	92	2	294	28	28	21	21	1.99
56711797--56711849	26	2.0	26	100	0	106	35	22	7	33	1.83
56714350--56714414	21	3.1	21	75	0	67	24	23	18	33	1.96
56714707--56714756	24	2.1	24	100	0	100	54	16	12	18	1.72
56716043--56716086	15	2.9	15	75	0	52	65	2	0	31	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56725275--56725506	118	2.0	118	96	0	430	41	9	12	37	1.75
56730349--56730392	21	2.1	21	100	0	88	25	0	9	65	1.21
56738014--56738078	26	2.5	26	78	16	71	36	0	1	61	1.05
56743771--56743817	24	2.0	24	91	0	76	10	19	6	63	1.47
56749842--56749913	35	2.1	35	100	0	144	37	8	25	29	1.85
56759191--56759218	14	2.0	14	100	0	56	92	0	7	0	0.37
56764317--56764341	13	1.9	13	100	0	50	12	24	32	32	1.91
56764778--56764819	15	2.7	16	82	14	52	45	0	2	52	1.13
56764769--56764810	15	2.9	15	82	10	52	47	0	0	52	1.00
56764922--56764956	18	2.0	17	88	5	52	45	0	0	54	0.99
56764756--56765069	157	2.0	157	96	0	583	47	5	3	44	1.41
56765121--56765211	45	2.0	44	85	2	119	35	28	5	30	1.80
56765192--56765259	16	4.2	16	92	0	109	35	35	0	29	1.58
56768378--56768437	23	2.6	23	97	0	111	50	31	3	15	1.60
56768593--56768642	24	2.1	23	82	14	57	28	26	0	46	1.53
56768652--56768677	10	2.6	10	100	0	52	50	19	0	30	1.48
56769442--56769474	16	2.1	16	94	0	57	0	15	9	75	1.03
56777029--56777081	27	2.0	27	85	3	72	50	0	0	49	1.00
56777041--56777097	18	3.1	19	82	10	64	42	1	1	54	1.21
56777041--56777096	19	3.1	18	84	7	60	42	1	1	53	1.21
56777053--56777114	19	3.2	18	82	11	70	40	1	4	53	1.32
56780885--56780936	25	2.1	25	85	7	70	51	19	25	3	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56783663--56783781	29	4.2	29	73	8	93	28	27	12	31	1.93
56787908--56788072	89	1.9	89	89	0	258	30	21	15	33	1.94
56788012--56788191	100	1.8	100	91	4	301	26	16	18	39	1.91
56788016--56788227	100	2.2	99	81	7	236	27	16	16	39	1.90
56789509--56789559	25	2.0	27	84	7	70	62	9	9	17	1.52
56790262--56790307	21	2.1	21	84	8	56	34	2	4	58	1.30
56792910--56792962	25	2.0	25	82	7	61	43	5	3	47	1.45
56792924--56793013	29	3.1	28	76	10	83	46	5	3	44	1.43
56795025--56795076	22	2.3	23	86	3	70	25	34	15	25	1.95
56797964--56797999	15	2.2	16	90	9	56	25	0	5	69	1.10

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250