genome.fa.s4.2.7.7.80.10.50.1000.63.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  63  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)
22589040--22589098	26	2.4	26	88	8	88	0	0	16	83	0.66
22589044--22589097	21	2.7	19	80	11	63	0	0	14	85	0.61
22589099--22589217	41	3.0	41	76	11	115	47	17	13	21	1.81
22589106--22589405	37	7.9	37	75	8	230	43	18	14	23	1.87
22589447--22589665	116	1.9	116	93	0	375	37	14	23	25	1.92
22595923--22595982	27	2.2	27	87	0	84	26	21	15	36	1.93
22595933--22595991	27	2.2	27	93	0	100	27	22	11	38	1.89
22599661--22599728	27	2.6	25	80	15	75	23	4	0	72	1.03
22599643--22599728	20	4.4	20	73	25	69	24	3	0	72	1.01
22599931--22599986	15	3.5	15	78	9	58	21	5	1	71	1.15
22602267--22602343	31	2.5	31	80	0	91	31	16	27	24	1.97
22602627--22602692	32	2.0	33	91	2	107	48	4	9	37	1.55
22602626--22602687	16	3.9	16	87	12	92	50	4	8	37	1.54
22602626--22602693	15	4.3	15	85	9	75	48	4	8	38	1.54
22604246--22604551	31	9.9	31	80	2	337	38	20	17	22	1.93
22604912--22605260	156	2.2	156	80	1	385	30	18	16	34	1.93
22606892--22607250	31	11.6	31	87	0	396	38	20	15	24	1.92
22607773--22607852	24	3.4	24	68	3	63	22	28	18	30	1.98
22607771--22608212	47	9.4	47	81	1	481	22	32	16	27	1.96
22612985--22613073	27	3.1	27	81	13	99	50	1	1	47	1.15
22613178--22613225	15	3.3	15	78	21	57	39	0	0	60	0.97
22613204--22613242	19	2.1	19	85	9	53	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22621340--22621380	20	2.0	21	85	4	57	46	2	7	43	1.44
22629431--22629471	16	2.3	18	80	20	59	14	34	7	43	1.73
22629441--22629475	16	2.2	16	100	0	70	17	28	5	48	1.69
22631854--22631890	6	6.2	6	96	0	56	0	56	10	32	1.34
22638143--22638198	15	3.7	15	78	2	58	0	21	14	64	1.29
22639170--22639198	14	2.0	15	93	6	51	82	0	3	13	0.79
22644087--22644141	28	2.0	28	88	0	83	21	0	14	63	1.30
22645803--22646042	22	10.9	22	71	6	103	23	10	25	41	1.86
22645998--22646042	23	2.0	23	95	0	81	26	13	28	31	1.94
22646050--22646135	22	4.0	22	80	3	102	40	22	11	25	1.87
22658942--22658983	21	2.0	22	85	4	59	42	0	4	52	1.22
22659272--22659348	33	2.3	33	86	0	100	35	14	9	41	1.77
22667647--22667690	17	2.6	18	85	7	56	45	0	0	54	0.99
22667736--22667767	14	2.1	16	88	11	50	59	0	0	40	0.97
22685965--22686007	17	2.5	17	79	20	54	83	4	11	0	0.78
22706437--22706510	14	5.3	14	68	11	53	39	1	0	59	1.06
22706465--22706517	27	2.0	27	92	0	88	33	0	0	66	0.92
22712604--22712751	2	75.0	2	85	5	203	44	1	3	50	1.27
22717811--22718435	241	2.6	240	89	2	932	38	10	14	37	1.80
22718821--22718924	43	2.4	43	82	3	120	39	16	17	26	1.90
22728721--22728778	27	2.2	25	81	9	62	18	1	13	65	1.35
22729722--22729782	29	2.1	30	84	9	81	59	1	8	31	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22737773--22737799	2	13.5	2	100	0	54	51	0	48	0	1.00
22739259--22739305	3	15.7	3	100	0	94	34	0	0	65	0.93
22741277--22741340	26	2.4	26	86	2	83	50	4	7	37	1.52
22741950--22742040	34	2.7	34	87	3	112	38	16	16	28	1.90
22759499--22759592	48	2.0	48	100	0	188	17	10	10	61	1.55
22762888--22762924	18	2.2	17	90	9	58	45	24	8	21	1.78
22779210--22779235	3	8.7	3	100	0	52	69	0	0	30	0.89
22785050--22785074	2	12.5	2	100	0	50	48	0	0	52	1.00
22786773--22786823	23	2.4	22	81	12	61	62	0	0	37	0.95
22786786--22786814	14	2.1	14	100	0	58	58	0	0	41	0.98
22805862--22805911	25	2.0	25	92	0	82	60	0	28	12	1.32
22806444--22806514	37	1.9	37	88	0	106	29	30	11	28	1.91
22815757--22815885	52	2.5	52	79	9	138	37	10	17	34	1.85
22815758--22815890	26	5.1	25	74	10	99	38	10	17	33	1.84
22815929--22815994	28	2.4	28	87	5	89	42	18	18	21	1.89
22816003--22816070	28	2.4	28	85	4	84	42	19	19	19	1.89
22815911--22816068	74	2.1	74	89	0	235	43	18	17	20	1.89
22816403--22816460	24	2.5	22	76	17	64	29	3	8	58	1.44
22823409--22823466	25	2.2	28	78	9	68	62	13	3	20	1.46
22825311--22825348	20	1.9	20	84	10	51	44	7	0	47	1.32
22830087--22830138	24	2.2	24	82	6	61	50	0	5	44	1.26
22840204--22840475	100	2.7	98	91	3	413	23	23	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22840204--22840475	49	5.5	49	90	5	404	23	23	18	33	1.97
22840481--22840559	24	3.3	23	81	10	88	20	25	17	36	1.94
22840917--22841117	82	2.5	81	90	3	323	40	7	11	39	1.71
22844127--22844189	31	2.0	31	84	0	81	36	9	14	39	1.78
22855344--22855388	2	22.5	2	100	0	90	51	0	0	48	1.00
22856450--22856496	26	1.9	23	86	8	58	23	6	4	65	1.33
22858022--22858063	2	21.0	2	85	0	57	47	0	0	52	1.00
22861364--22861403	17	2.4	17	84	12	55	70	2	2	25	1.13
22862787--22863248	225	2.1	223	87	2	649	41	12	15	30	1.84
22866489--22866513	2	12.5	2	100	0	50	48	0	52	0	1.00
22866786--22866817	2	16.0	2	100	0	64	0	50	0	50	1.00
22866817--22866861	2	22.5	2	100	0	90	48	0	0	51	1.00
22867964--22868000	19	1.9	19	88	0	56	43	0	8	48	1.32
22868038--22868243	26	7.7	26	73	10	139	47	9	9	33	1.69
22868039--22868243	80	2.5	80	76	8	184	47	9	9	33	1.69
22868066--22868258	54	3.6	54	76	6	151	47	8	10	33	1.69
22877199--22877243	22	2.0	22	95	0	81	37	22	17	22	1.94
22884571--22884639	35	2.0	35	88	0	102	39	20	2	37	1.68
22884952--22885143	63	3.1	62	81	6	199	32	10	2	54	1.49
22885432--22885496	14	4.5	15	77	12	64	26	4	0	69	1.08
22889678--22889763	2	43.0	2	88	9	131	46	0	1	51	1.08
22892819--22892847	13	2.2	13	100	0	58	17	44	6	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22895117--22895158	22	1.9	22	90	0	66	9	23	9	57	1.60
22896816--22896885	22	3.2	20	79	16	61	24	4	0	71	1.04
22896841--22896879	15	2.5	15	87	4	51	20	5	0	74	1.01
22896853--22896907	7	7.6	7	76	8	56	18	7	0	74	1.04
22896851--22896907	15	3.9	15	76	17	57	19	7	0	73	1.05
22896853--22896909	22	2.6	23	86	10	75	17	8	0	73	1.07
22897097--22897188	7	13.4	7	74	18	61	27	1	2	69	1.07
22897138--22897188	9	5.7	9	75	13	52	21	1	1	74	1.02
22897132--22897174	22	1.9	23	85	4	61	20	2	2	74	1.04
22897900--22898113	104	2.1	103	90	6	344	21	8	3	64	1.37
22898841--22898870	15	2.0	15	100	0	60	20	0	13	66	1.24
22903057--22903081	11	2.3	11	100	0	50	56	8	0	36	1.29
22908078--22908124	21	2.2	21	85	7	60	53	0	0	46	1.00
22909178--22909219	22	2.0	22	85	4	59	47	16	14	21	1.82
22912975--22912999	2	12.5	2	100	0	50	48	0	0	52	1.00
22914953--22915028	40	1.9	40	94	0	134	36	15	11	35	1.85
22926476--22926505	14	2.1	14	93	0	51	23	0	0	76	0.78
22926472--22926506	15	2.2	16	90	10	54	22	0	0	77	0.78
22927475--22927503	2	14.5	2	100	0	58	48	0	0	51	1.00
22929655--22929735	41	1.9	44	87	7	123	54	6	13	25	1.62
22940403--22940451	2	24.5	2	87	0	62	46	6	2	44	1.39
22941205--22941236	16	2.0	16	93	0	55	75	0	3	21	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22947448--22947480	17	1.9	18	88	11	52	27	0	12	60	1.32
22955252--22955295	21	2.0	23	87	12	67	34	0	4	61	1.16
22955635--22955666	15	2.0	17	88	11	50	37	0	0	62	0.95
22968409--22968435	3	9.0	3	100	0	54	66	0	0	33	0.92
22979537--22979581	21	2.1	22	84	12	67	44	8	2	44	1.47
22979543--22979581	21	1.9	21	94	5	71	38	10	2	48	1.51
22986670--22986729	30	2.0	30	96	0	111	33	1	10	55	1.43
22986675--22986740	30	2.2	30	86	0	87	34	3	10	51	1.52
22986754--22986803	21	2.4	21	79	0	55	44	2	2	52	1.24
22994215--22994242	2	14.0	2	100	0	56	50	0	50	0	1.00

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