genome.fa.s4.2.7.7.80.10.50.1000.38.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  38  of  82  ( 9773 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)
13994849--13994897	21	2.4	21	83	10	57	0	30	0	69	0.89
13994875--13994920	14	3.3	14	76	11	58	0	34	0	65	0.93
13994871--13994923	17	3.5	17	71	28	64	0	33	0	66	0.92
13994856--13994924	28	2.5	28	92	2	113	0	30	0	69	0.89
13994847--13994913	10	6.8	10	72	14	59	0	32	0	67	0.91
13995822--13995851	11	2.7	11	89	0	51	36	0	0	63	0.95
14017409--14017468	2	30.0	2	100	0	120	50	0	0	50	1.00
14019404--14019482	39	2.0	39	100	0	158	34	10	20	35	1.86
14042790--14042847	29	2.0	29	100	0	116	27	13	27	31	1.94
14045980--14046058	40	2.0	40	87	5	115	21	22	21	34	1.97
14046055--14046092	19	2.0	20	94	5	69	18	28	21	31	1.97
14048637--14048715	40	2.0	40	87	0	113	20	20	22	36	1.95
14066182--14066211	2	15.5	2	93	6	53	50	0	0	50	1.00
14067697--14068729	352	3.0	346	83	5	1305	37	7	22	33	1.81
14070172--14070297	43	3.0	42	88	3	189	23	33	18	24	1.97
14077148--14077206	26	2.1	31	84	15	83	3	28	1	66	1.18
14082810--14082846	19	2.0	18	89	5	56	45	18	0	35	1.50
14084772--14084803	16	2.1	16	88	11	50	56	18	0	25	1.42
14084975--14085033	26	2.3	26	79	5	66	1	28	3	66	1.18
14091365--14091474	35	3.1	35	80	2	123	46	20	14	19	1.84
14091343--14091474	70	1.9	70	85	3	185	46	19	15	18	1.83
14091705--14091778	29	2.6	29	80	8	87	17	27	10	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14098675--14098714	19	2.1	19	85	0	53	2	25	10	62	1.39
14110899--14110923	12	2.1	12	100	0	50	52	8	0	40	1.31
14111662--14111720	20	3.0	20	76	0	64	35	15	15	33	1.89
14113252--14113299	24	2.0	23	84	8	60	39	20	6	33	1.78
14121187--14121220	3	11.3	3	87	0	50	0	32	0	67	0.91
14126441--14126480	14	2.9	13	85	7	53	65	5	0	30	1.14
14133204--14133236	17	1.9	17	88	11	50	24	24	6	45	1.75
14133953--14133983	2	15.5	2	100	0	62	48	0	0	51	1.00
14136451--14136477	11	2.5	11	100	0	54	18	33	0	48	1.49
14139491--14139545	5	11.6	5	78	18	64	0	20	0	80	0.72
14139492--14139545	14	3.9	14	85	9	74	0	20	0	79	0.73
14139489--14139545	19	3.1	19	85	11	75	0	19	0	80	0.71
14139491--14139548	24	2.5	23	88	8	82	0	22	0	77	0.77
14139674--14139763	34	2.6	34	84	6	112	32	31	12	24	1.92
14139703--14139794	34	2.7	34	83	8	107	30	29	13	27	1.94
14139674--14139794	34	3.5	33	80	11	104	30	30	13	25	1.93
14147401--14147427	3	9.0	3	100	0	54	66	0	0	33	0.92
14155064--14155104	20	2.0	20	85	0	55	7	39	0	53	1.29
14157028--14157066	2	20.0	2	94	5	71	51	0	0	48	1.00
14159584--14159651	34	2.0	35	85	2	93	35	22	10	32	1.88
14159594--14159721	67	1.9	66	82	4	159	36	25	10	26	1.89
14160630--14160670	21	1.9	22	90	5	66	51	7	24	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14160630--14160674	20	2.2	21	84	11	58	55	6	22	15	1.63
14160628--14160675	21	2.3	20	79	10	60	56	6	22	14	1.61
14174713--14174758	20	2.3	20	96	0	83	45	21	4	28	1.71
14175386--14175410	13	1.9	13	100	0	50	44	0	8	48	1.32
14188467--14188506	21	2.0	21	85	5	55	62	7	0	30	1.23
14188547--14188589	21	2.0	22	86	13	63	51	18	4	25	1.66
14190381--14190637	68	3.8	68	83	4	286	36	9	17	35	1.83
14190381--14190637	136	1.9	136	82	3	329	36	9	17	35	1.83
14198517--14198559	17	2.6	16	79	17	52	69	4	23	2	1.18
14199776--14199945	69	2.5	70	85	1	209	61	3	32	2	1.26
14205058--14205261	43	4.7	43	90	0	300	23	17	33	25	1.96
14205235--14205287	26	2.0	26	96	0	97	20	16	35	26	1.94
14205196--14205330	69	2.0	69	91	2	218	22	17	34	25	1.95
14205265--14205382	43	2.7	43	86	0	173	22	14	35	27	1.93
14205149--14205372	112	2.0	112	91	0	358	22	16	34	26	1.95
14212225--14212334	43	2.6	43	88	5	152	20	36	18	25	1.94
14220895--14220929	2	17.5	2	93	0	61	51	2	0	45	1.16
14220932--14220987	3	19.7	3	78	10	55	32	41	1	25	1.66
14220934--14220996	20	3.2	20	90	2	101	30	41	3	25	1.71
14220999--14221103	43	2.4	43	88	3	149	17	36	20	26	1.94
14240097--14240139	21	2.0	22	81	4	52	51	6	23	18	1.70
14240983--14241007	13	1.9	13	100	0	50	44	0	8	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14246124--14246155	2	16.0	2	93	0	55	50	3	0	46	1.17
14253074--14253218	43	3.4	43	81	1	166	22	33	17	26	1.96
14253074--14253235	43	3.8	42	81	4	148	22	33	18	25	1.97
14268775--14269434	330	2.0	330	99	0	1311	30	17	21	31	1.96
14270730--14270764	13	2.5	15	86	13	56	40	0	0	60	0.97
14283408--14283621	38	5.7	38	69	13	142	24	41	14	20	1.88
14283451--14283691	108	2.2	108	96	0	455	24	41	14	19	1.88
14289840--14290088	35	7.1	35	81	3	279	36	7	12	42	1.72
14289860--14290088	107	2.2	106	84	1	298	36	8	12	42	1.73
14303139--14303176	19	2.0	19	89	0	58	31	0	26	42	1.56
14375898--14376148	132	1.9	131	95	1	441	27	17	7	47	1.73
14376679--14376754	28	2.7	28	85	4	100	39	21	18	21	1.93
14386851--14386875	13	1.9	13	100	0	50	44	0	8	48	1.32
14388080--14388120	15	2.7	16	88	7	59	26	2	19	51	1.59
14388076--14388121	15	3.1	15	81	9	58	23	2	17	56	1.52
14388156--14388188	5	6.8	5	93	6	59	39	0	21	39	1.53
14388156--14388188	14	2.3	15	94	5	59	39	0	21	39	1.53
14388157--14388195	19	2.1	19	90	0	60	35	2	23	38	1.68
14394817--14394968	67	2.3	67	83	2	189	38	26	12	23	1.90
14394874--14394968	35	2.8	33	81	7	120	35	27	13	23	1.92
14395391--14395586	73	2.7	73	80	4	216	21	18	17	41	1.90
14400822--14400868	24	2.0	24	95	0	85	53	12	14	19	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14404741--14404859	41	2.9	39	80	6	103	50	8	26	15	1.72
14415111--14415144	17	2.0	17	88	0	50	17	8	26	47	1.77
14415425--14415449	5	5.0	5	100	0	50	0	20	0	80	0.72
14416686--14416742	21	2.6	22	80	5	80	21	10	22	45	1.82
14416775--14416883	23	4.8	23	87	4	150	33	29	11	24	1.91
14416775--14416913	46	3.0	46	84	9	167	34	27	12	25	1.92
14416776--14417096	26	13.6	25	77	13	231	35	27	12	24	1.91
14416845--14417151	95	3.3	95	86	3	392	36	26	13	23	1.92
14417014--14417152	21	6.3	21	73	13	109	37	28	13	20	1.91
14416984--14417114	69	1.9	69	88	3	201	38	27	12	22	1.89
14417882--14417918	16	2.3	16	90	0	56	43	5	0	51	1.24
14418006--14418060	2	27.5	2	100	0	110	50	0	0	49	1.00
14418067--14418107	2	20.5	2	100	0	82	0	0	51	48	1.00
14437508--14437544	19	1.9	19	94	0	65	27	0	27	45	1.54
14443145--14443298	55	2.8	55	90	0	236	24	14	33	27	1.94
14449686--14449718	17	1.9	17	88	11	50	48	0	24	27	1.51
14452621--14452699	2	39.0	2	91	2	86	46	0	0	44	1.03
14452971--14453053	33	2.5	33	80	0	112	40	15	6	37	1.72
14453115--14453172	30	1.9	30	92	0	98	50	12	6	31	1.66
14453121--14453219	30	3.3	30	80	9	96	48	8	10	33	1.66
14476058--14476099	2	21.0	2	92	0	66	45	0	2	52	1.13
14476610--14476654	2	24.5	2	82	17	53	44	2	0	53	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14477247--14477303	30	1.9	30	96	0	105	54	19	0	26	1.44
14479105--14479140	2	18.0	2	100	0	72	50	0	50	0	1.00
14480879--14480913	2	18.0	2	94	5	63	48	0	0	51	1.00
14484179--14484210	17	1.9	17	93	6	57	6	12	0	81	0.87
14484490--14484805	53	5.8	55	70	15	185	34	14	14	36	1.87
14484499--14484877	110	3.5	106	77	9	320	34	15	14	35	1.88
14484553--14484847	53	5.4	54	72	13	196	35	14	13	35	1.86
14492120--14492446	43	8.0	41	75	13	257	21	30	19	28	1.97
14492146--14492446	40	7.4	40	78	7	286	21	30	19	27	1.98
14492146--14492446	83	3.7	83	85	5	400	21	30	19	27	1.98

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