genome.fa.s17.2.7.7.80.10.50.1000.45.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  45  of  173  ( 20651 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)
12298871--12298939	26	2.6	27	75	4	79	36	15	7	40	1.76
12314410--12314444	6	5.8	6	100	0	70	65	0	0	34	0.93
12317739--12317814	27	2.8	26	84	4	80	23	25	13	38	1.91
12320145--12320201	28	2.0	28	86	0	78	5	28	5	61	1.39
12320250--12320280	16	1.9	16	93	0	53	16	35	0	48	1.46
12321045--12321130	45	1.9	45	90	4	138	52	22	4	20	1.65
12321099--12321157	28	2.0	28	83	9	73	50	23	3	22	1.63
12321620--12321650	15	2.1	15	93	0	53	35	3	45	16	1.63
12323785--12323833	20	2.4	21	83	10	66	55	8	10	26	1.61
12326049--12326089	21	2.0	21	85	0	55	43	14	0	41	1.45
12326160--12326220	30	2.0	30	96	0	113	22	22	11	42	1.86
12326956--12327007	26	2.0	28	85	11	74	59	9	3	26	1.46
12327005--12327204	4	49.8	4	72	19	109	53	19	2	25	1.58
12327235--12327353	12	9.5	13	72	23	80	52	21	5	20	1.65
12327273--12327339	36	1.9	34	85	11	91	53	23	4	17	1.62
12327451--12327496	19	2.4	18	82	13	56	65	13	4	17	1.42
12328973--12329048	35	2.2	35	78	4	82	40	11	2	44	1.55
12329489--12329693	70	2.9	70	92	0	329	30	16	18	34	1.93
12340761--12341299	129	4.2	129	85	2	622	31	21	21	25	1.98
12340711--12341394	214	3.2	213	85	3	788	31	21	20	26	1.98
12341140--12341385	129	1.9	129	92	0	411	30	21	21	27	1.98
12340794--12341394	85	7.0	84	76	8	437	31	21	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12343938--12343985	22	2.1	23	84	3	62	2	20	0	77	0.88
12353655--12353722	35	1.9	35	82	5	84	36	13	4	45	1.63
12353775--12353809	8	4.4	8	92	0	52	28	2	0	68	1.04
12353769--12353809	16	2.5	16	88	4	55	31	2	0	65	1.05
12354169--12354374	71	2.9	71	91	2	324	28	17	18	35	1.94
12354925--12354988	29	2.2	28	89	5	101	64	3	9	23	1.38
12355004--12355117	55	2.1	56	85	5	151	50	19	8	21	1.75
12356256--12356281	13	2.0	13	100	0	52	38	7	7	46	1.61
12358870--12358923	25	2.2	25	96	0	99	40	22	5	31	1.77
12363161--12363522	199	1.8	199	83	1	483	31	26	17	25	1.97
12366925--12367003	27	2.8	29	75	12	76	46	0	2	50	1.14
12366942--12367004	27	2.4	28	84	7	78	50	0	0	49	1.00
12370198--12370227	12	2.5	12	100	0	60	43	6	20	30	1.77
12372585--12372686	42	2.4	43	83	1	125	24	17	25	32	1.97
12374882--12374934	20	2.6	20	77	11	54	79	7	9	3	1.05
12379065--12379101	17	2.2	17	90	0	56	37	10	2	48	1.52
12381361--12381403	23	1.9	22	90	4	68	55	2	6	34	1.39
12381438--12381486	24	2.0	24	84	8	62	51	2	6	40	1.38
12381504--12381567	32	1.9	35	84	9	89	50	3	9	37	1.51
12382110--12382198	22	4.2	22	80	11	105	35	15	7	40	1.77
12382158--12382211	19	2.8	19	97	0	99	33	16	12	37	1.87
12382720--12382835	44	2.6	45	83	6	148	32	23	13	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12382777--12383098	132	2.4	132	92	0	545	27	22	19	30	1.98
12383067--12383321	44	5.8	44	88	5	331	29	25	18	27	1.98
12382782--12383274	132	3.7	131	83	3	356	28	23	18	29	1.98
12383067--12383321	132	1.9	132	88	1	386	29	25	18	27	1.98
12387453--12387496	19	2.3	19	84	7	54	36	11	20	31	1.88
12389650--12389697	23	2.0	23	84	8	60	50	2	6	41	1.39
12390339--12390390	19	2.9	17	78	10	59	32	15	11	40	1.83
12391383--12391457	39	1.9	39	89	5	116	37	20	10	32	1.87
12392006--12392073	30	2.2	31	84	2	84	47	7	19	26	1.75
12398167--12398240	32	2.3	32	80	2	85	24	0	5	70	1.08
12398282--12398355	29	2.5	29	82	4	85	22	14	14	47	1.82
12398882--12398958	29	2.6	29	83	4	91	46	14	14	24	1.81
12399232--12399271	19	2.1	19	90	0	62	65	5	0	30	1.14
12400078--12400137	18	3.3	19	80	15	74	55	6	0	38	1.27
12400182--12400214	16	2.0	17	94	5	59	57	0	0	42	0.98
12401698--12401751	3	17.7	3	96	3	99	33	0	0	66	0.92
12415655--12415686	17	1.9	17	93	6	57	40	3	0	56	1.15
12416104--12416134	15	2.1	15	93	0	53	29	6	22	41	1.78
12418074--12418156	30	2.7	30	83	10	98	36	9	13	40	1.77
12420510--12420535	3	8.7	3	100	0	52	34	0	0	65	0.93
12427300--12427324	9	2.8	9	100	0	50	32	0	36	32	1.58
12429141--12429172	15	2.1	15	94	0	55	68	9	6	15	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12434497--12434535	16	2.5	15	83	4	51	43	0	12	43	1.42
12436269--12436330	27	2.4	24	74	25	56	38	0	3	58	1.15
12436269--12436329	28	2.2	28	80	19	74	39	0	3	57	1.15
12448728--12448849	44	2.8	43	81	9	122	27	19	25	27	1.99
12448772--12449498	44	16.6	43	68	13	301	31	18	20	29	1.96
12448772--12449494	175	4.1	175	94	0	1250	31	18	20	29	1.96
12448897--12449529	44	14.3	46	69	14	307	30	19	20	29	1.97
12449428--12449532	46	2.3	46	88	0	129	30	20	19	30	1.96
12451456--12451518	20	2.8	22	79	18	60	38	0	3	58	1.14
12458948--12458999	21	2.5	21	83	0	68	50	5	30	13	1.65
12462753--12462830	39	2.0	39	94	0	138	37	24	12	25	1.91
12463773--12463849	23	3.3	23	87	3	102	40	23	11	24	1.88
12483383--12483458	36	2.1	36	80	11	84	51	1	9	38	1.42
12483492--12484485	502	2.0	501	99	0	1970	51	11	12	25	1.72
12484494--12484551	22	2.6	22	81	7	64	41	17	5	36	1.72
12485639--12485740	44	2.3	44	82	0	123	25	25	18	30	1.98
12485851--12487019	45	26.0	45	85	0	1424	30	20	16	32	1.95
12488249--12488291	9	4.8	9	94	5	70	11	2	6	79	1.02
12490800--12490845	11	4.4	11	76	17	53	45	0	2	52	1.13
12490800--12490845	16	3.0	15	87	12	67	45	0	2	52	1.13
12494574--12494609	3	12.0	3	100	0	72	66	0	0	33	0.92
12494915--12494990	36	2.1	36	80	11	84	51	1	9	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12495521--12495578	22	2.6	22	81	7	64	41	17	5	36	1.72
12495557--12495611	21	2.7	21	94	5	96	36	14	10	38	1.81
12502965--12502995	16	1.9	16	100	0	62	29	6	0	64	1.18
12505085--12505135	23	2.2	24	82	3	59	41	9	1	47	1.48
12517866--12518014	44	3.4	44	72	7	140	31	21	20	26	1.98
12518387--12518544	53	3.1	53	80	14	224	35	14	8	41	1.76
12525112--12525210	41	2.4	42	81	6	121	15	31	11	42	1.81
12525197--12525224	12	2.3	12	100	0	56	7	42	10	39	1.67
12528449--12528516	35	1.9	35	90	0	109	41	23	10	25	1.86
12530075--12530125	23	2.2	24	82	3	59	41	7	1	49	1.43
12535073--12535147	39	1.9	39	88	0	114	16	32	18	33	1.93
12540961--12541070	39	2.8	39	80	5	132	18	30	17	33	1.94
12544105--12544155	23	2.2	23	89	0	75	41	19	9	29	1.84
12549391--12549461	36	2.0	36	91	0	115	32	7	19	40	1.79
12549821--12549860	21	1.9	21	85	10	55	60	25	2	12	1.45
12551938--12551977	7	5.9	7	94	5	73	45	0	0	55	0.99
12563576--12563614	2	20.0	2	84	5	53	48	0	51	0	1.00
12570474--12570503	13	2.2	14	94	5	53	0	16	3	80	0.85
12570853--12570892	19	2.2	17	86	8	53	50	0	0	50	1.00
12573393--12573781	195	2.0	195	94	0	688	26	11	28	32	1.91
12577390--12577428	18	2.2	17	86	13	53	33	0	20	46	1.51
12577433--12577562	71	1.9	68	95	4	233	38	3	21	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12577722--12577819	23	4.3	23	90	2	162	20	21	26	31	1.98
12577724--12577812	45	2.0	45	95	0	160	19	22	26	31	1.97
12582937--12582975	18	2.2	17	86	13	53	33	0	20	46	1.51
12583248--12583345	23	4.3	23	90	2	162	20	21	26	31	1.98
12583250--12583338	45	2.0	45	95	0	160	19	22	26	31	1.97
12588461--12588499	18	2.2	17	86	13	53	33	0	20	46	1.51
12588538--12588606	31	2.2	32	92	7	115	39	8	23	28	1.84
12588756--12588853	23	4.3	23	90	2	162	20	21	26	31	1.98
12588758--12588846	45	2.0	45	95	0	160	19	22	26	31	1.97
12593967--12594021	17	3.0	20	77	22	66	40	0	20	40	1.52

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