genome.fa.s6.2.7.7.80.10.50.1000.47.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  47  of  109  ( 13028 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)
15335674--15335802	43	3.0	43	76	14	120	31	27	17	24	1.97
15336692--15336716	5	5.0	5	100	0	50	40	0	0	60	0.97
15345953--15345989	19	1.9	20	88	5	58	56	2	2	37	1.28
15347977--15348022	16	2.9	16	79	17	51	52	0	2	45	1.13
15350002--15350068	27	2.6	27	79	15	70	26	4	2	65	1.26
15350110--15350299	94	2.0	95	96	2	355	31	10	6	52	1.61
15356732--15356895	50	3.3	51	71	5	163	30	21	25	23	1.99
15356889--15357248	132	2.7	132	88	1	542	28	19	25	26	1.99
15358800--15358848	13	3.7	13	80	2	53	24	4	0	71	1.03
15358782--15358848	27	2.6	27	79	15	70	25	4	2	67	1.24
15362886--15362918	15	2.1	16	88	5	50	12	3	0	84	0.72
15363990--15364040	27	1.9	26	84	11	68	23	9	11	54	1.66
15366873--15366925	15	3.6	15	74	5	54	54	11	7	26	1.62
15368124--15368150	13	2.1	13	100	0	54	29	14	18	37	1.91
15375224--15375329	44	2.5	41	79	18	135	34	32	3	29	1.75
15375237--15375329	44	2.1	46	93	4	163	36	31	4	27	1.76
15375311--15375363	16	3.3	16	94	0	97	22	33	5	37	1.78
15387034--15387068	18	1.9	18	88	0	52	77	14	0	8	0.99
15387105--15387176	27	2.7	27	80	4	92	22	33	34	9	1.87
15387212--15387275	30	2.2	29	91	2	101	67	0	31	1	1.00
15387206--15387248	20	2.2	20	91	0	68	65	0	32	2	1.06
15387642--15388660	159	6.4	159	93	2	1633	53	8	9	28	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15391668--15391704	3	12.3	3	100	0	74	67	0	0	32	0.91
15391712--15391853	76	1.9	76	88	2	214	52	11	5	30	1.60
15391945--15392006	14	4.5	13	69	15	52	1	24	0	74	0.91
15395019--15395080	27	2.2	28	82	2	72	19	8	4	67	1.34
15395398--15395453	20	2.8	20	86	5	69	46	5	1	46	1.36
15399030--15399112	39	2.1	41	90	4	134	54	7	0	38	1.28
15405699--15405835	37	3.7	36	79	11	152	37	15	21	25	1.93
15407830--15407867	18	2.1	19	85	5	51	21	21	2	55	1.56
15412766--15412837	5	14.2	5	94	5	119	38	0	0	61	0.96
15413057--15413111	3	18.3	3	100	0	110	32	0	0	67	0.91
15413237--15413261	2	12.5	2	100	0	50	52	0	0	48	1.00
15414256--15414302	21	2.2	21	100	0	94	34	17	12	36	1.87
15418796--15418828	13	2.6	13	90	4	50	84	0	15	0	0.61
15418796--15418858	20	3.0	21	81	11	67	84	4	9	1	0.84
15418807--15418858	23	2.3	23	86	6	70	84	5	7	1	0.84
15418807--15418847	13	3.2	13	86	13	50	85	4	7	2	0.81
15419366--15419408	15	2.9	15	83	12	54	69	2	13	13	1.28
15420920--15421403	50	9.7	50	68	7	284	30	22	26	20	1.98
15420925--15421386	100	4.6	100	95	0	764	30	22	26	20	1.98
15424500--15424558	28	2.1	28	87	0	82	32	10	8	49	1.67
15425479--15425532	27	2.0	26	96	3	99	18	25	24	31	1.97
15425697--15425734	18	2.1	19	85	5	51	21	21	2	55	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15427845--15427945	42	2.4	42	96	0	184	22	29	30	16	1.96
15428138--15428244	22	4.9	22	84	6	130	35	26	0	37	1.63
15429096--15429135	20	2.0	20	85	9	55	35	0	10	55	1.34
15430466--15431236	28	29.2	28	82	11	882	48	17	0	33	1.52
15430466--15431236	184	4.2	184	100	0	1542	48	17	0	33	1.52
15430466--15431238	156	4.9	155	83	8	732	48	17	0	33	1.52
15432503--15432842	125	2.7	125	96	0	628	31	23	17	27	1.97
15432752--15432925	83	2.1	84	96	1	323	32	22	18	25	1.97
15432627--15433040	207	2.0	209	95	2	746	32	23	16	27	1.96
15432836--15433099	124	2.1	123	87	3	379	31	24	14	29	1.95
15434192--15434217	3	8.7	3	100	0	52	30	0	0	69	0.89
15438570--15438604	18	1.9	18	88	0	52	68	5	2	22	1.24
15440138--15440181	20	2.3	19	81	14	54	47	13	18	20	1.82
15441668--15441819	6	25.3	6	90	0	169	58	0	40	1	1.06
15451057--15451101	23	2.0	23	86	4	65	77	6	2	13	1.05
15454843--15454882	18	2.2	18	100	0	80	25	17	10	47	1.78
15464515--15464705	94	2.0	94	97	0	364	39	19	6	34	1.78
15470099--15470130	9	3.6	9	91	0	55	40	0	3	56	1.15
15476582--15476606	7	3.6	7	100	0	50	72	0	16	12	1.13
15481372--15481743	100	3.7	99	82	3	367	31	16	21	29	1.95
15481763--15481961	109	1.8	109	86	0	290	36	19	15	28	1.93
15499393--15499426	15	2.3	15	89	0	50	20	2	2	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15500470--15500554	17	5.1	17	81	1	91	42	16	7	34	1.75
15501193--15501279	36	2.4	36	82	3	95	41	17	9	32	1.81
15505183--15505208	6	4.3	6	100	0	52	19	0	0	80	0.71
15515131--15515203	32	2.3	32	87	0	101	15	19	42	23	1.88
15519137--15519165	5	5.8	5	100	0	58	79	0	0	20	0.74
15519179--15519216	13	2.7	14	88	8	51	73	2	2	21	1.07
15521429--15521458	2	15.0	2	100	0	60	50	0	0	50	1.00
15532063--15532103	18	2.3	18	86	0	55	17	29	24	29	1.97
15533124--15533170	24	2.0	24	86	0	67	40	8	4	46	1.54
15541060--15541148	9	9.9	9	91	0	142	23	8	23	43	1.82
15544395--15544430	16	2.3	15	90	4	54	13	0	8	77	0.98
15548611--15548652	6	6.8	6	91	2	57	57	0	26	16	1.40
15549749--15549786	18	2.2	18	86	9	53	42	15	10	31	1.81
15569007--15569076	35	2.0	35	100	0	140	31	22	11	34	1.90
15591049--15591098	25	2.0	26	84	4	66	14	2	4	80	0.95
15592699--15592754	24	2.3	24	84	0	67	33	7	26	32	1.84
15594093--15594155	24	2.7	23	78	9	74	25	3	1	69	1.12
15600456--15600526	35	2.0	35	100	0	142	45	11	11	32	1.75
15602839--15602896	29	2.0	30	86	3	82	27	5	3	63	1.31
15602848--15602904	29	2.0	29	82	0	69	26	7	5	61	1.43
15603206--15603332	64	1.9	65	85	7	177	32	5	3	58	1.39
15606208--15606266	1	59.0	1	96	0	109	0	1	0	98	0.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15613865--15613901	18	2.1	18	100	0	74	5	29	21	43	1.75
15616163--15616392	42	5.5	42	77	5	189	30	17	20	30	1.96
15616163--15616392	84	2.7	84	83	1	255	30	17	20	30	1.96
15624200--15624315	51	2.3	50	95	1	205	31	13	25	29	1.94
15626293--15626336	21	2.1	21	83	8	54	34	11	20	34	1.88
15628108--15628166	29	2.0	30	90	3	93	30	3	13	52	1.57
15643705--15643747	22	1.9	23	85	4	61	16	6	11	65	1.46
15654697--15654744	25	2.0	24	84	12	62	52	2	8	37	1.44
15661751--15661803	24	2.2	24	82	0	61	45	3	33	16	1.66
15661771--15661843	24	3.0	24	78	4	67	45	8	31	15	1.75
15665626--15665656	16	1.9	16	93	0	53	19	22	6	51	1.69
15665864--15666104	50	4.8	50	81	1	243	21	29	21	26	1.99
15667178--15667208	13	2.5	13	94	5	55	41	16	12	29	1.85
15672273--15672323	21	2.5	20	87	6	75	13	23	5	56	1.59
15672528--15672768	50	4.8	50	82	1	252	21	29	21	26	1.99
15673201--15673242	19	2.2	19	95	0	75	28	11	14	45	1.80
15679704--15679773	26	2.7	26	80	8	88	34	18	10	37	1.84
15682562--15682613	14	3.6	14	82	12	70	0	34	0	65	0.93
15694932--15695077	65	2.2	65	97	0	274	30	10	19	40	1.84
15702410--15702436	13	2.1	13	100	0	54	29	0	22	48	1.51
15703300--15703367	20	3.5	20	80	6	77	44	17	25	13	1.85
15703354--15703399	19	2.4	19	81	3	56	39	17	28	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15703417--15703630	40	5.3	40	76	8	193	34	17	26	21	1.95
15703444--15703630	80	2.3	80	80	8	227	34	17	26	21	1.95
15710178--15710240	17	3.6	16	76	19	63	63	0	1	34	1.04
15710169--15710240	19	3.9	18	75	13	58	65	0	1	33	1.02
15712273--15712330	18	3.3	18	74	13	59	13	41	17	27	1.87
15712282--15712317	16	2.2	16	90	0	54	16	38	13	30	1.88
15712319--15712403	16	5.3	16	77	5	91	11	42	16	29	1.84
15712316--15712532	32	6.7	32	72	7	141	14	41	13	29	1.85
15712320--15712423	16	6.5	16	79	6	86	12	43	15	28	1.83
15712317--15712429	48	2.4	47	77	8	120	12	43	15	29	1.83

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