genome.fa.s5.2.7.7.80.10.50.1000.59.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:  30015117

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   

This is table  59  of  85  ( 10117 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)
20598368--20598552	44	4.2	44	65	10	117	32	18	17	31	1.94
20598312--20599293	132	7.5	132	92	1	1557	30	18	23	27	1.98
20598632--20599223	44	13.6	44	64	14	190	29	19	24	26	1.98
20599023--20599272	124	2.0	124	93	0	428	30	18	24	27	1.98
20599309--20599422	44	2.6	44	84	2	131	33	14	24	28	1.94
20608939--20608976	18	2.1	18	85	9	51	60	10	2	26	1.43
20622470--20622700	44	5.2	44	84	2	257	30	19	20	29	1.97
20622470--20622711	132	1.8	132	82	1	315	30	19	20	29	1.97
20622465--20622700	88	2.7	88	80	2	285	30	19	20	29	1.97
20622842--20622939	44	2.2	43	80	7	108	29	19	21	29	1.97
20623684--20623730	7	6.7	7	95	0	67	87	6	6	0	0.68
20623684--20623730	14	3.4	14	90	0	76	87	6	6	0	0.68
20632628--20633105	239	2.0	239	99	0	940	34	12	13	40	1.82
20635401--20635481	30	2.7	30	84	0	99	24	11	13	50	1.74
20635667--20635712	24	2.0	23	86	4	65	65	2	4	28	1.23
20635646--20635843	104	1.9	104	97	2	380	54	11	4	30	1.55
20635950--20636101	31	5.0	31	70	9	132	46	13	18	22	1.83
20640626--20641079	226	2.0	227	99	0	901	42	8	8	40	1.65
20656348--20656398	13	4.1	13	80	10	61	66	0	5	27	1.14
20656516--20656643	60	2.1	60	95	0	229	55	13	0	31	1.38
20663298--20663326	6	4.8	6	100	0	58	51	0	31	17	1.45
20665015--20665045	3	10.3	3	100	0	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20675064--20675091	6	4.7	6	100	0	56	14	17	17	50	1.79
20687960--20688114	46	3.6	45	78	16	193	37	12	22	27	1.91
20687999--20688117	36	3.0	36	74	21	130	38	14	20	26	1.91
20687960--20688117	82	1.9	82	97	0	298	37	13	22	27	1.91
20694398--20694446	3	16.3	3	100	0	98	32	0	0	67	0.91
20709519--20709561	22	2.0	22	86	9	61	41	0	9	48	1.35
20713820--20713845	3	8.7	3	100	0	52	0	30	0	69	0.89
20714896--20714975	35	2.3	34	85	12	101	38	30	5	26	1.77
20714955--20715088	13	9.9	14	67	19	70	45	33	0	20	1.56
20714958--20715034	7	11.3	7	76	8	70	45	31	0	23	1.53
20714981--20715032	26	1.9	28	88	7	81	46	28	0	25	1.53
20714974--20715088	33	3.4	33	73	12	108	45	34	0	19	1.56
20714996--20715087	7	13.9	7	72	13	52	45	34	1	18	1.57
20717306--20717346	18	2.3	18	80	20	50	63	0	0	36	0.95
20723000--20723041	22	1.9	22	90	0	66	59	2	2	35	1.23
20729764--20729830	30	2.2	30	89	0	107	23	16	5	53	1.65
20730575--20730607	17	1.9	17	93	0	57	27	27	12	33	1.92
20730872--20730918	22	2.0	24	88	8	71	57	0	8	34	1.29
20731166--20731332	3	54.0	3	71	9	77	59	4	8	26	1.46
20733968--20733993	6	4.3	6	100	0	52	53	0	30	15	1.42
20742675--20742717	22	2.0	22	85	0	59	11	18	25	44	1.84
20742810--20743138	42	7.7	43	90	1	432	31	31	17	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20742810--20743138	85	3.9	86	85	2	432	31	31	17	19	1.95
20744280--20744310	16	1.9	16	100	0	62	38	12	12	35	1.82
20748000--20748205	41	5.0	39	79	10	198	31	27	20	20	1.98
20748000--20748205	82	2.5	81	81	6	236	31	27	20	20	1.98
20748240--20748349	40	2.8	39	80	6	98	29	18	20	32	1.96
20748282--20748374	40	2.3	40	86	0	132	22	17	21	38	1.93
20751344--20751411	16	4.2	16	92	0	109	39	2	32	25	1.71
20751598--20751721	55	2.3	54	79	12	130	49	5	0	44	1.31
20765282--20765344	31	2.0	31	81	6	74	20	6	3	69	1.24
20765533--20765583	21	2.5	21	81	9	61	17	9	1	70	1.24
20774964--20775033	21	3.4	21	69	15	56	20	18	25	35	1.95
20778917--20779057	47	3.0	48	79	15	159	35	23	20	20	1.96
20779497--20779536	20	2.0	21	95	5	73	50	5	0	45	1.23
20792787--20792830	18	2.5	18	92	3	72	31	0	4	63	1.14
20794291--20794359	34	2.0	35	97	2	131	34	14	17	33	1.90
20798650--20798835	84	2.2	84	95	0	336	15	17	28	38	1.91
20798668--20799137	188	2.5	188	92	3	753	19	18	27	33	1.96
20798970--20799424	114	4.1	114	86	2	631	22	18	26	32	1.97
20798970--20799398	227	1.9	225	89	1	662	23	18	26	31	1.97
20800787--20800819	15	2.2	15	100	0	66	21	0	42	36	1.53
20801595--20802433	28	30.0	28	99	0	1660	56	7	7	28	1.52
20803986--20804015	14	2.1	14	100	0	60	26	13	6	53	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20804484--20804595	22	5.2	22	68	22	69	37	4	9	48	1.57
20804559--20804641	33	2.5	33	92	3	123	36	6	13	44	1.68
20804811--20804980	9	19.0	9	67	17	70	47	19	3	30	1.66
20804816--20804890	32	2.3	31	77	8	78	49	17	2	30	1.60
20804920--20804980	16	3.7	16	80	8	68	50	21	0	27	1.49
20811305--20811474	42	4.1	41	90	3	250	33	22	22	21	1.97
20819513--20819538	13	2.0	13	100	0	52	30	7	23	38	1.83
20819760--20819838	30	2.7	29	84	7	88	21	16	22	39	1.92
20830658--20830691	17	2.0	17	94	0	59	38	5	5	50	1.51
20830757--20830791	18	1.9	18	94	0	61	22	20	8	48	1.76
20834989--20835030	15	2.9	15	82	10	52	52	0	0	47	1.00
20836881--20836920	8	5.2	8	82	11	57	62	25	0	12	1.30
20839058--20839096	9	4.3	9	83	9	53	76	0	10	12	1.01
20839059--20839099	17	2.4	17	87	4	64	75	0	9	14	1.04
20839058--20839108	26	1.9	27	84	11	70	74	0	7	17	1.05
20852467--20852589	23	5.3	23	74	13	74	42	17	16	23	1.89
20852467--20852606	46	3.0	47	84	5	158	43	18	14	23	1.87
20852508--20852591	22	3.6	22	76	16	89	46	16	13	23	1.82
20852483--20852606	24	5.3	23	75	7	106	45	18	12	23	1.84
20852488--20852606	48	2.5	46	83	5	150	44	18	13	23	1.85
20876968--20876992	13	1.9	13	100	0	50	48	8	0	44	1.32
20891117--20891176	31	1.9	31	83	6	77	41	10	21	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20895343--20895369	14	1.9	14	100	0	54	62	0	0	37	0.95
20898916--20899136	5	43.8	5	91	1	127	27	0	30	41	1.62
20898933--20899071	15	9.3	15	98	0	260	21	0	38	40	1.54
20898933--20899071	10	13.9	10	98	0	260	21	0	38	40	1.54
20904171--20904201	3	10.3	3	92	0	53	64	32	3	0	1.09
20912601--20912651	17	3.1	16	86	8	75	19	21	0	58	1.39
20912802--20912846	20	2.2	20	88	0	63	62	6	0	31	1.21
20926612--20926653	18	2.5	18	81	11	54	33	0	4	61	1.17
20942807--20943077	126	2.2	126	88	2	402	37	18	14	28	1.91
20946326--20946390	30	2.2	30	91	0	103	40	4	29	26	1.76
20951874--20952164	126	2.3	126	91	0	483	27	20	20	31	1.98
20956398--20956447	26	1.9	26	100	0	100	28	12	10	50	1.71
20956901--20956938	20	1.9	20	84	10	51	44	2	0	52	1.14
20958135--20958221	39	2.3	38	86	5	115	31	14	16	37	1.89
20962700--20962775	32	2.4	32	84	0	89	25	23	5	46	1.73
20967627--20967669	21	2.0	22	86	9	61	23	13	13	48	1.79
20970163--20970208	11	4.5	11	76	15	53	54	0	2	43	1.12
20970162--20970221	30	2.1	30	87	6	88	56	0	1	41	1.09
20970174--20970229	19	2.9	21	87	10	75	60	0	1	37	1.07
20971730--20971762	8	4.1	8	96	0	57	24	0	0	75	0.80
20972042--20972093	3	17.7	3	96	4	97	67	0	0	32	0.91
20978592--20978703	40	2.8	39	79	4	125	36	19	22	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20978766--20979056	41	7.1	41	81	3	273	20	19	29	30	1.97
20978971--20979047	40	1.9	41	86	2	111	23	22	20	33	1.97
20978766--20979056	123	2.4	122	77	4	316	20	19	29	30	1.97
20979230--20979278	14	3.5	14	74	0	53	22	0	32	44	1.53
20979231--20979289	28	2.1	28	81	6	66	23	3	27	45	1.68
20980003--20980049	21	2.2	22	88	3	69	19	0	40	40	1.51
20979973--20980015	7	6.1	7	88	0	68	18	0	30	51	1.47
20980069--20980116	7	6.7	7	83	4	60	16	0	41	41	1.48
20980071--20980110	15	2.8	14	85	7	53	17	0	47	35	1.48
20980023--20980116	36	2.6	36	73	9	93	20	0	38	41	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