genome.fa.s23.2.7.7.80.10.50.1000.14.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_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   

This is table  14  of  218  ( 26060 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)
5123239--5123403	87	1.9	86	81	5	197	46	20	1	30	1.61
5123254--5123439	34	5.7	33	72	19	149	46	20	1	31	1.60
5123276--5123451	25	6.8	25	71	12	106	44	20	2	32	1.64
5129420--5129617	42	4.8	42	88	6	305	23	20	22	33	1.97
5129420--5129617	81	2.4	84	89	4	305	23	20	22	33	1.97
5129696--5129739	21	2.1	21	86	0	61	40	27	20	11	1.86
5132019--5132059	19	2.0	21	90	9	68	46	0	7	46	1.30
5133874--5134027	77	2.0	77	98	0	299	38	19	13	27	1.90
5139002--5139038	2	19.0	2	94	5	67	51	0	0	48	1.00
5142099--5142249	78	1.9	78	94	0	266	34	21	18	25	1.96
5147759--5147879	18	6.6	18	65	16	61	38	9	0	52	1.33
5149487--5149536	19	2.7	18	76	11	57	44	0	0	56	0.99
5150536--5150643	50	2.2	50	91	0	171	25	12	16	45	1.83
5151047--5151085	21	1.9	20	84	5	51	38	5	10	46	1.60
5157908--5157947	16	2.6	15	92	7	71	57	5	0	37	1.21
5158192--5158305	55	2.1	55	86	5	158	40	11	14	33	1.82
5158613--5158731	60	2.0	60	91	0	193	55	12	0	31	1.37
5158899--5158932	16	2.1	16	88	5	50	2	23	0	73	0.97
5162172--5162329	44	3.7	44	75	9	148	31	25	17	25	1.97
5163542--5163602	22	2.7	22	87	2	77	49	1	1	47	1.21
5163578--5163617	16	2.5	16	91	0	62	47	2	7	42	1.45
5163628--5163767	59	2.4	59	96	0	262	40	4	8	47	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5163749--5163776	9	3.1	9	100	0	56	32	0	10	57	1.33
5163873--5163917	24	1.9	23	90	4	72	62	2	0	35	1.08
5164856--5165056	43	4.7	43	87	3	278	27	16	23	31	1.96
5167517--5167543	2	13.5	2	100	0	54	51	0	0	48	1.00
5177685--5177716	16	2.0	17	88	11	50	53	3	0	43	1.16
5177812--5177900	45	2.0	46	82	10	114	33	3	4	58	1.35
5191218--5191252	14	2.6	14	90	4	54	85	0	0	14	0.59
5191417--5191469	22	2.5	22	75	9	56	33	0	5	60	1.20
5193761--5193801	21	2.0	21	95	0	73	34	12	31	21	1.91
5194427--5194487	30	2.1	27	85	8	77	26	14	13	45	1.81
5195060--5195093	15	2.3	15	90	5	52	67	5	0	26	1.13
5195184--5195240	29	2.0	29	86	10	82	56	1	0	42	1.10
5195276--5195326	22	2.3	21	83	9	66	33	0	33	33	1.58
5195279--5195378	52	1.9	52	91	0	164	38	0	32	30	1.58
5195331--5195386	22	2.5	22	97	2	103	41	0	30	28	1.57
5196337--5197014	337	2.0	337	100	0	1356	35	9	15	40	1.79
5202975--5202999	7	3.6	7	100	0	50	16	28	0	56	1.41
5204519--5204562	23	2.0	23	86	4	63	47	6	0	45	1.29
5209223--5209254	12	2.4	14	90	10	50	78	3	3	15	1.01
5211885--5212483	37	16.4	36	81	5	557	34	20	15	29	1.93
5211898--5212540	109	5.8	110	82	5	683	35	20	15	28	1.93
5212301--5212556	39	6.8	39	84	5	172	35	20	14	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5211885--5212563	73	9.2	76	78	8	500	35	20	15	29	1.93
5217969--5218008	21	1.9	21	84	0	53	55	10	10	25	1.64
5218800--5218862	31	2.1	29	85	11	83	61	9	14	14	1.55
5236334--5236533	105	1.9	106	96	1	375	31	18	19	31	1.96
5236993--5237098	37	2.8	38	77	16	105	50	0	13	35	1.41
5237559--5237652	48	2.0	48	89	4	145	18	12	28	40	1.87
5240511--5240567	22	2.6	23	78	18	75	64	3	7	24	1.34
5241281--5241305	13	1.9	13	100	0	50	68	0	8	24	1.16
5243960--5243998	21	1.9	20	84	5	51	10	10	33	46	1.72
5245510--5245568	30	2.0	30	93	0	100	57	15	1	25	1.47
5246296--5246351	27	2.0	29	89	6	89	16	0	33	50	1.45
5246404--5246678	95	2.9	95	80	7	315	41	2	16	38	1.64
5248065--5248096	12	2.7	12	100	0	64	53	6	0	40	1.26
5249994--5250045	11	4.7	11	77	17	54	46	0	26	26	1.53
5250441--5250487	23	2.1	23	88	4	69	42	0	25	31	1.55
5250441--5250496	22	2.5	22	83	8	69	44	0	26	28	1.54
5250445--5250496	11	4.7	11	83	9	61	46	0	28	25	1.53
5250795--5250842	21	2.3	21	85	7	62	35	0	8	56	1.30
5250866--5250931	29	2.2	29	83	5	78	31	9	16	42	1.80
5250883--5250941	29	2.0	30	93	3	102	28	6	15	49	1.70
5252930--5253025	44	2.2	45	92	1	158	44	12	12	30	1.79
5256982--5257116	57	2.3	56	83	7	155	51	4	0	42	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5260002--5260071	34	2.1	34	97	0	131	45	21	12	20	1.84
5261609--5261641	16	2.1	16	94	0	57	48	27	9	15	1.74
5266317--5266429	41	2.8	41	84	2	129	30	23	18	26	1.98
5266330--5266436	41	2.6	41	86	0	133	31	21	18	28	1.97
5266606--5266658	13	3.4	16	72	27	51	49	11	1	37	1.50
5266691--5266744	12	4.2	12	77	13	63	44	9	3	42	1.54
5268846--5269046	41	4.9	41	90	2	305	16	17	27	38	1.91
5268851--5269111	123	2.1	123	81	6	298	18	18	24	38	1.93
5269482--5269551	16	4.4	16	67	16	56	27	1	21	50	1.57
5269484--5269564	23	3.5	23	72	22	80	23	1	24	50	1.56
5269575--5269615	22	1.9	21	85	14	57	19	0	24	56	1.42
5274219--5274354	66	2.1	66	92	0	227	40	18	27	13	1.89
5274703--5274835	43	3.1	43	90	4	198	28	18	26	27	1.98
5280470--5280514	20	2.3	20	96	3	83	48	8	11	31	1.69
5288369--5288395	2	13.5	2	100	0	54	51	0	48	0	1.00
5290361--5290405	22	2.1	21	83	4	54	42	0	0	57	0.98
5290344--5290405	21	2.9	21	79	9	63	40	0	0	59	0.97
5297042--5297100	27	2.2	27	82	11	68	59	3	6	30	1.40
5297094--5297132	16	2.4	16	82	0	51	51	2	10	35	1.50
5297215--5297239	3	8.3	3	100	0	50	68	0	0	32	0.90
5298831--5299027	44	4.5	44	69	12	134	25	25	19	29	1.98
5298691--5299118	132	3.2	132	95	0	739	25	22	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5298875--5299338	221	2.1	220	93	1	795	26	22	19	31	1.98
5299007--5299206	89	2.3	88	92	2	330	27	21	20	31	1.98
5299051--5299185	45	3.0	45	66	17	127	26	21	18	33	1.96
5299096--5299345	132	1.9	132	94	0	446	27	23	18	30	1.98
5299886--5300115	114	2.0	114	83	8	288	24	22	21	31	1.98
5300093--5300962	50	17.5	49	70	6	414	23	20	23	32	1.98
5300001--5300962	100	9.7	99	85	5	957	23	20	23	32	1.98
5300001--5300962	199	4.8	199	83	4	977	23	20	23	32	1.98
5301151--5301985	44	19.0	44	65	15	251	24	24	22	27	2.00
5301130--5301985	88	9.7	88	93	0	1433	25	24	22	27	2.00
5303067--5303110	21	2.1	21	86	0	61	25	38	11	25	1.89
5303199--5303242	7	6.6	7	79	10	56	15	15	0	68	1.22
5303200--5303238	20	2.0	20	94	0	69	15	12	0	71	1.14
5308215--5308253	16	2.4	16	82	0	51	51	2	10	35	1.50
5308348--5308372	3	8.3	3	100	0	50	68	0	0	32	0.90
5308360--5308397	17	2.2	18	86	13	53	57	5	13	23	1.56
5311913--5312041	67	1.9	67	96	0	240	29	33	15	21	1.94
5312164--5312311	57	2.5	60	84	11	198	22	26	20	29	1.99
5315119--5315182	30	2.1	31	82	8	78	45	3	1	50	1.27
5319879--5319906	11	2.5	11	100	0	56	7	39	10	42	1.67
5323395--5323445	18	3.0	18	78	18	56	47	0	0	52	1.00
5323345--5323563	120	1.8	120	98	0	429	45	1	5	47	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5323515--5323549	18	2.0	17	88	5	52	45	0	0	54	0.99
5323714--5323804	45	2.0	45	85	2	121	37	28	6	27	1.82
5323785--5323853	16	4.2	16	92	3	120	36	37	1	24	1.65
5323785--5323853	33	2.1	32	94	2	120	36	37	1	24	1.65
5325530--5325571	20	2.1	20	82	8	50	26	9	11	52	1.68
5326815--5326844	12	2.5	12	88	0	51	6	16	0	76	0.99
5353934--5355492	778	2.0	777	97	0	2956	30	18	26	24	1.98
5358253--5358310	22	2.7	21	84	7	80	32	3	18	44	1.67
5358263--5358307	23	2.0	22	91	4	72	31	4	17	46	1.68
5359679--5359711	15	2.2	15	100	0	66	57	6	0	36	1.23

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