genome.fa.s16.2.7.7.80.10.50.1000.134.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_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   

This is table  134  of  170  ( 20315 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)
40601979--40602026	3	16.3	3	82	4	62	37	2	0	60	1.09
40606917--40606950	7	4.9	7	88	0	50	76	0	2	20	0.92
40606918--40606951	14	2.5	14	95	4	61	73	0	5	20	1.04
40608336--40609198	100	8.6	100	87	1	1140	29	20	24	25	1.99
40610733--40610771	3	13.3	3	83	5	53	35	2	0	61	1.10
40625401--40625434	15	2.2	16	89	5	52	73	5	2	17	1.16
40628294--40628352	21	2.8	20	80	14	57	54	3	1	40	1.27
40628341--40628397	28	2.1	28	96	3	107	57	0	1	40	1.09
40628344--40628376	16	2.0	17	94	5	59	60	0	0	39	0.97
40628346--40628437	28	3.2	29	81	10	91	64	1	2	32	1.13
40628346--40628410	28	2.4	28	89	2	96	63	0	3	33	1.10
40631434--40631490	21	2.7	21	86	0	87	33	49	12	5	1.63
40631615--40631676	25	2.4	24	82	12	70	40	1	4	53	1.32
40634735--40634967	125	1.9	125	81	5	292	27	17	14	40	1.88
40635054--40635118	34	1.9	34	87	6	96	43	15	1	40	1.56
40635191--40635253	33	1.9	33	90	0	99	44	19	1	34	1.60
40642591--40642615	12	2.1	12	100	0	50	56	16	8	20	1.65
40652014--40652131	37	3.2	36	73	15	116	16	15	30	37	1.90
40655540--40655638	46	2.1	47	83	5	121	44	17	12	26	1.83
40656625--40656722	28	3.6	26	83	9	124	28	27	12	31	1.93
40658976--40659115	11	13.5	11	71	17	61	41	2	0	56	1.11
40658971--40659109	49	2.8	48	84	11	142	41	2	0	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40658965--40659109	50	2.9	49	74	13	111	40	2	0	57	1.10
40659038--40659109	30	2.3	32	88	9	114	41	2	0	55	1.14
40659027--40659109	22	4.0	22	77	16	79	42	2	0	55	1.13
40658965--40659117	51	3.1	49	73	12	109	39	1	0	58	1.09
40659065--40659130	22	3.0	21	80	6	69	45	1	1	51	1.19
40660199--40660256	29	2.0	29	96	0	107	10	43	13	32	1.78
40664497--40664551	13	4.3	13	83	4	67	45	20	5	29	1.73
40666472--40666508	9	4.1	9	89	0	56	43	13	13	29	1.82
40666847--40666877	16	1.9	16	93	0	53	25	29	0	45	1.54
40691336--40691361	3	8.7	3	100	0	52	69	0	0	30	0.89
40692909--40694161	44	28.7	44	66	13	304	29	22	18	30	1.97
40692992--40693736	129	5.6	129	78	8	753	28	22	18	30	1.97
40693342--40693540	99	2.0	99	95	0	353	28	22	16	32	1.96
40692908--40693909	175	5.7	175	76	10	878	28	22	18	30	1.97
40693741--40694164	126	3.3	127	91	1	652	28	22	18	30	1.97
40696555--40696656	9	11.0	9	78	14	75	10	0	6	81	0.92
40696577--40696655	1	79.0	1	74	0	50	8	0	6	84	0.76
40696579--40696654	9	8.8	9	83	9	79	9	0	6	84	0.78
40696552--40696655	25	4.2	24	78	12	95	9	0	6	82	0.88
40696555--40696654	51	2.0	51	84	7	132	10	1	7	82	0.90
40696553--40696654	18	5.9	17	75	10	91	9	0	6	82	0.89
40700615--40700656	21	2.0	22	85	4	59	16	14	7	61	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40706614--40706672	22	2.7	22	83	0	64	28	3	5	62	1.32
40707371--40707433	21	2.9	22	73	4	74	47	3	0	49	1.17
40710471--40710590	50	2.4	50	92	0	195	27	15	17	40	1.89
40714919--40714959	22	1.9	21	85	5	55	4	39	2	53	1.35
40716554--40716618	34	1.9	34	93	6	114	52	0	7	40	1.30
40733672--40733890	110	2.0	110	93	0	375	30	14	23	31	1.94
40744774--40744887	25	4.6	24	73	13	79	33	21	22	22	1.97
40750605--40750640	17	2.1	17	89	0	54	66	2	0	30	1.06
40755126--40755176	19	2.5	21	75	18	54	47	0	1	50	1.12
40755522--40755546	13	1.9	13	100	0	50	64	4	0	32	1.12
40755525--40755569	21	2.1	21	83	4	54	66	4	4	24	1.29
40755915--40755968	28	1.9	28	88	7	83	5	31	16	46	1.70
40757327--40757375	23	2.1	23	96	0	89	16	22	26	34	1.95
40762111--40762176	33	2.0	33	96	0	123	42	16	4	36	1.69
40763806--40763878	32	2.4	29	93	6	119	32	0	6	60	1.23
40765206--40765413	91	2.3	91	92	0	335	46	2	4	46	1.37
40765328--40765388	28	2.2	28	85	5	81	45	0	3	50	1.17
40765246--40765388	44	3.2	43	68	20	112	45	2	3	48	1.31
40765433--40765966	120	4.4	120	97	0	971	42	2	5	48	1.40
40765683--40765728	16	2.9	16	78	12	51	45	0	2	52	1.13
40765803--40765849	16	3.0	16	78	12	53	46	0	2	51	1.13
40768761--40768804	22	2.0	21	83	16	54	20	63	0	15	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40775874--40776204	169	2.0	169	100	0	662	33	15	10	40	1.82
40778417--40778459	22	2.0	22	90	0	68	11	20	25	41	1.86
40778443--40778728	43	6.7	43	81	9	230	26	27	19	25	1.99
40778444--40778690	86	2.9	85	82	6	266	25	27	19	26	1.99
40783626--40783680	21	2.7	20	81	13	58	40	30	0	29	1.57
40783798--40783840	7	6.3	7	81	5	52	32	51	2	13	1.54
40784479--40784884	41	9.9	41	90	0	533	29	28	22	19	1.98
40788122--40788168	19	2.5	19	93	3	78	44	10	4	40	1.59
40790294--40790357	29	2.2	30	86	8	87	34	7	3	54	1.45
40794018--40794051	16	2.2	15	89	5	50	35	0	2	61	1.11
40794466--40794508	3	14.3	3	100	0	86	32	0	0	67	0.91
40846562--40846611	26	1.9	26	84	8	66	12	6	44	38	1.66
40851079--40851164	30	3.0	29	85	12	117	43	6	24	25	1.79
40851079--40851165	25	3.0	30	87	11	121	42	6	25	25	1.79
40855646--40855696	25	2.0	25	96	0	93	50	7	17	23	1.72
40855643--40855731	30	3.1	30	84	12	116	42	6	24	25	1.79
40859337--40859386	25	2.0	26	88	4	75	40	10	6	44	1.63
40859519--40859558	5	7.0	6	88	11	50	62	0	0	37	0.95
40859533--40859590	29	2.0	30	83	10	75	53	5	1	39	1.33
40862184--40862276	43	2.2	43	96	0	168	32	29	16	22	1.95
40862184--40862338	43	3.6	42	81	8	116	33	25	15	25	1.95
40862740--40862790	20	2.6	19	81	9	57	68	0	1	29	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40862740--40862795	19	2.8	20	86	10	62	69	0	1	28	0.98
40862760--40862820	30	2.0	30	81	6	79	65	0	0	34	0.93
40862762--40862809	11	4.6	11	73	21	50	62	0	0	37	0.95
40864477--40864510	13	2.6	13	95	0	59	29	14	32	23	1.94
40866230--40866260	14	2.2	14	94	0	53	45	38	0	16	1.47
40871220--40871277	14	4.1	14	78	6	64	36	41	0	22	1.54
40871220--40871280	21	2.9	21	76	13	63	36	42	0	21	1.53
40871279--40871320	14	2.9	14	82	6	57	47	30	0	21	1.51
40871612--40871650	20	2.0	20	84	0	51	61	7	7	23	1.49
40872502--40872551	7	7.0	7	82	17	59	72	0	14	14	1.14
40872502--40872551	15	3.5	14	84	15	59	72	0	14	14	1.14
40872502--40872551	22	2.3	22	86	10	68	72	0	14	14	1.14
40872508--40872553	15	3.1	15	87	12	60	69	0	17	13	1.19
40873890--40874901	101	10.0	100	87	1	1324	28	20	24	26	1.99
40873890--40874901	404	2.5	403	91	0	1578	28	20	24	26	1.99
40876328--40876378	24	2.1	25	82	10	61	29	0	3	66	1.09
40876460--40876503	13	3.7	12	79	8	54	34	2	0	63	1.07
40876514--40876650	75	1.9	72	82	10	170	32	5	4	57	1.40
40886085--40886144	31	1.9	30	83	12	77	50	11	13	25	1.75
40889335--40889365	6	5.2	6	96	0	53	29	51	19	0	1.47
40893355--40893418	33	1.9	33	83	0	83	32	9	34	23	1.87
40896852--40896937	9	9.0	9	78	16	93	62	3	0	33	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40896853--40896925	10	7.3	11	69	17	52	64	2	0	32	1.08
40896852--40896937	21	4.5	18	78	16	93	62	3	0	33	1.12
40900550--40900589	20	2.0	20	95	0	71	57	5	22	15	1.57
40908259--40908305	18	2.7	18	76	3	51	63	0	4	31	1.13
40908773--40908799	7	3.9	7	100	0	54	44	0	0	55	0.99
40912572--40912613	12	3.7	12	84	9	61	28	28	0	42	1.56
40912567--40912613	12	4.0	12	81	10	53	27	29	0	42	1.56
40912668--40912704	10	3.7	10	85	0	56	29	0	0	70	0.88
40915760--40915794	15	2.3	15	95	0	61	22	0	14	62	1.31
40915768--40915801	15	2.3	15	89	0	50	20	2	14	61	1.46

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