genome.fa.s4.2.7.7.80.10.50.1000.55.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  55  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)
20095815--20095862	20	2.4	20	96	0	87	20	10	39	29	1.86
20102140--20102261	43	2.8	43	80	11	119	24	17	36	21	1.94
20102585--20102711	60	2.1	60	83	2	157	26	18	17	37	1.93
20104382--20104441	9	6.4	9	79	12	59	71	0	1	26	0.95
20104389--20104439	3	17.7	3	84	8	70	68	0	1	29	1.00
20105025--20105065	20	2.0	22	90	9	68	75	0	21	2	0.92
20105113--20105139	14	1.9	14	100	0	54	62	0	37	0	0.95
20105105--20105225	46	2.7	46	76	17	128	65	1	32	0	1.08
20105113--20105176	4	16.5	4	77	9	53	67	0	32	0	0.91
20105253--20105344	4	23.0	4	75	16	75	67	0	32	0	0.91
20105246--20105344	35	2.8	37	86	6	132	66	0	33	0	0.92
20105814--20105844	2	15.5	2	100	0	62	51	0	0	48	1.00
20105961--20105999	10	4.1	10	80	12	55	61	0	10	28	1.28
20113932--20113970	17	2.4	17	84	16	55	53	2	2	41	1.28
20114714--20114781	30	2.3	30	84	5	93	5	11	52	29	1.61
20114698--20114768	18	4.3	18	66	20	55	7	16	50	25	1.70
20127115--20127185	29	2.5	28	81	4	81	47	12	23	15	1.80
20129007--20129137	63	2.1	63	97	0	244	42	25	9	22	1.84
20130109--20130201	25	3.5	24	76	18	78	4	19	0	76	0.95
20130162--20130203	9	4.9	9	85	11	52	0	21	0	78	0.75
20134255--20134306	27	1.9	27	84	0	68	28	30	13	26	1.94
20134390--20134441	27	1.9	27	88	0	77	26	25	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20136497--20136860	182	2.0	182	89	1	559	34	24	12	28	1.91
20139228--20139288	25	2.4	27	76	18	67	45	18	6	29	1.74
20139381--20139410	15	1.9	15	93	6	51	73	0	23	3	0.98
20144835--20144940	37	2.9	37	86	0	140	23	39	9	27	1.85
20147554--20148051	141	3.5	141	84	3	581	26	22	16	34	1.95
20152436--20152511	38	2.0	38	89	0	116	36	13	19	30	1.90
20155637--20155680	22	2.0	23	86	13	65	45	0	0	54	0.99
20155637--20155680	23	2.0	22	86	13	63	45	0	0	54	0.99
20157160--20157194	16	2.2	16	89	0	52	48	8	2	40	1.49
20159129--20159227	42	2.3	41	79	6	108	43	5	1	50	1.30
20159431--20159495	16	4.1	15	75	16	60	49	1	1	47	1.20
20161665--20161694	14	2.1	14	93	0	51	43	26	0	30	1.55
20161617--20161926	80	3.9	80	84	2	365	34	23	9	32	1.86
20162948--20163020	21	3.5	21	69	10	69	38	10	15	35	1.82
20163023--20163071	19	2.6	19	100	0	98	42	10	16	30	1.81
20163221--20163255	16	2.3	15	90	5	52	68	5	5	20	1.31
20173301--20173333	16	2.0	17	94	5	59	27	0	0	72	0.85
20186146--20186226	28	2.9	28	83	5	85	27	17	18	37	1.93
20186180--20186246	27	2.5	27	87	4	91	28	14	14	41	1.86
20187722--20187778	13	4.2	13	78	10	53	22	0	5	71	1.05
20187747--20187788	19	2.2	19	86	0	57	28	2	2	66	1.16
20195242--20195307	28	2.3	29	86	2	89	45	21	6	27	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20197275--20197355	35	2.3	35	81	10	94	23	17	24	34	1.96
20197334--20197476	27	5.4	27	82	11	136	30	17	15	36	1.91
20197987--20198514	47	11.2	47	84	3	650	27	16	33	22	1.95
20198017--20198142	24	5.3	23	64	14	60	26	15	34	23	1.94
20197945--20198071	23	5.5	23	67	5	67	26	15	33	24	1.95
20197985--20198516	94	5.7	94	90	1	771	27	16	33	22	1.96
20198298--20198422	24	5.3	24	61	18	64	28	16	32	23	1.96
20200060--20200084	13	1.9	13	100	0	50	48	8	0	44	1.32
20205698--20205743	15	3.1	15	90	0	74	56	15	2	26	1.50
20207678--20207997	156	2.1	156	87	2	464	33	17	19	29	1.95
20208357--20208658	31	9.8	31	81	1	347	24	16	19	38	1.93
20210190--20210268	17	4.9	16	75	10	72	34	8	5	51	1.55
20210193--20210269	16	4.9	14	73	23	57	33	9	5	51	1.56
20210188--20210381	52	3.9	48	78	9	149	35	11	5	47	1.62
20210315--20210344	15	1.9	16	93	6	53	36	6	3	53	1.44
20210553--20210628	31	2.5	31	88	0	107	27	31	14	26	1.95
20214333--20214812	31	15.5	31	82	5	524	26	15	22	35	1.94
20219345--20219403	23	2.6	23	88	0	82	23	33	22	20	1.97
20219440--20219618	55	3.3	54	78	3	187	40	29	15	14	1.86
20237445--20237497	24	2.3	23	83	9	63	69	3	3	22	1.20
20237449--20237500	26	2.0	26	85	7	70	71	1	3	23	1.13
20237748--20237783	17	2.2	16	90	5	54	75	0	0	25	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20237748--20237783	8	4.4	8	86	6	54	75	0	0	25	0.81
20237747--20237803	27	2.1	27	84	12	73	77	0	0	22	0.77
20237757--20237803	14	3.4	14	77	13	53	76	0	0	23	0.78
20237762--20237802	20	2.1	19	86	13	57	78	0	0	21	0.76
20237901--20237959	13	4.3	13	73	12	55	74	0	3	22	0.96
20237902--20237996	29	3.3	27	69	16	66	71	1	4	23	1.10
20244248--20244289	17	2.4	18	84	4	59	4	9	2	83	0.88
20244580--20244675	47	2.0	47	84	4	122	39	5	13	41	1.67
20244627--20245134	283	1.8	276	80	5	608	48	5	13	32	1.66
20244627--20245165	141	3.9	140	81	5	538	48	5	13	33	1.65
20245362--20245428	29	2.2	30	84	7	91	16	19	29	34	1.94
20250134--20250232	37	2.7	37	88	1	155	37	15	14	33	1.87
20252758--20252837	6	13.3	6	90	0	124	21	31	0	47	1.51
20255603--20256201	298	2.0	298	95	0	1074	31	22	16	30	1.95
20256167--20257064	461	2.0	459	96	0	1634	30	20	15	34	1.93
20257133--20257180	2	25.5	2	83	12	66	50	0	0	50	1.00
20257124--20257179	9	6.1	9	80	12	60	50	0	1	48	1.11
20257133--20257180	7	6.4	8	88	9	66	50	0	0	50	1.00
20257133--20257180	9	5.1	10	82	14	66	50	0	0	50	1.00
20257939--20258019	35	2.3	36	85	6	103	61	9	0	28	1.28
20262843--20262898	22	2.7	21	77	5	60	67	3	0	28	1.07
20268886--20268923	19	2.0	19	100	0	76	42	31	0	26	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20273237--20273286	19	2.6	19	78	6	57	32	24	6	38	1.79
20279485--20279599	21	5.3	22	81	6	119	34	24	8	32	1.86
20279497--20279592	43	2.3	42	85	3	129	33	23	8	34	1.85
20279666--20279731	21	3.1	21	84	2	78	33	24	7	34	1.84
20279815--20279895	21	3.9	21	81	3	92	37	22	7	33	1.82
20279528--20279885	139	2.5	146	81	7	371	33	21	9	34	1.86
20279812--20279907	42	2.3	42	81	12	117	37	22	6	33	1.80
20279837--20279917	21	3.9	22	77	9	89	38	25	7	28	1.83
20279427--20280041	337	1.9	327	83	6	808	33	22	10	33	1.88
20280071--20280208	51	2.7	51	88	2	190	23	8	21	46	1.79
20280312--20280344	12	2.6	13	85	9	50	21	3	0	75	0.93
20281266--20281340	32	2.3	32	97	0	141	62	0	34	2	1.09
20281745--20281795	27	1.9	27	88	4	77	62	0	9	27	1.26
20282553--20282585	17	1.9	17	93	0	57	9	6	3	81	0.95
20287388--20287429	2	21.0	2	100	0	84	50	0	0	50	1.00
20288421--20288486	32	2.1	31	86	5	89	27	6	10	56	1.57
20290864--20290893	15	1.9	16	93	6	53	53	6	0	40	1.27
20290902--20291041	41	3.5	40	81	5	165	23	0	16	59	1.42
20296063--20296091	15	1.9	15	100	0	58	44	0	0	55	0.99
20305213--20305308	42	2.3	42	87	0	138	26	30	20	22	1.99
20305281--20305335	28	2.0	28	88	0	83	21	36	20	21	1.95
20311677--20311712	14	2.6	14	90	0	54	13	44	0	41	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20319211--20319249	15	2.6	16	88	11	57	15	15	0	69	1.20
20319551--20319585	17	2.1	17	94	0	61	22	20	11	45	1.82
20319655--20319748	2	47.0	2	91	0	152	45	0	0	54	0.99
20325379--20325443	28	2.3	29	86	2	87	46	20	6	27	1.74
20336025--20337035	197	5.1	197	91	1	1583	41	26	12	18	1.87
20345302--20345351	14	3.6	14	80	15	59	26	2	0	72	0.96
20345263--20345352	30	3.0	31	75	18	82	28	2	0	68	1.01
20345266--20345351	42	2.0	42	82	8	104	26	2	0	70	0.99
20345264--20345352	12	7.5	12	70	25	57	28	2	0	69	1.00
20345344--20345373	10	3.1	10	95	4	53	40	0	0	60	0.97

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