genome.fa.s5.2.7.7.80.10.50.1000.18.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  18  of  103  ( 12320 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)
6434628--6434664	17	2.2	17	95	0	65	10	13	27	48	1.75
6438003--6438074	27	2.6	28	82	6	92	45	15	9	29	1.78
6437881--6438196	153	2.1	154	83	4	406	40	12	16	31	1.85
6437995--6438091	27	3.6	26	81	6	88	39	14	13	32	1.85
6438034--6438275	128	1.9	127	80	5	285	39	11	16	32	1.85
6446673--6446737	34	1.9	34	96	0	121	35	16	20	27	1.94
6454295--6454334	17	2.2	20	86	13	59	37	2	27	32	1.70
6459772--6459907	43	3.2	42	82	3	164	24	33	15	27	1.95
6479968--6480023	22	2.5	22	85	0	67	26	8	16	48	1.75
6480109--6480162	23	2.3	23	84	6	65	44	27	5	22	1.75
6480130--6480180	23	2.2	23	89	0	75	41	25	7	25	1.82
6480213--6480295	22	3.8	22	85	1	96	46	21	7	24	1.76
6480433--6480460	9	3.1	9	100	0	56	46	10	10	32	1.73
6480438--6480565	60	2.1	60	82	0	157	43	15	7	33	1.74
6480675--6480710	16	2.3	16	95	4	65	41	0	0	58	0.98
6482525--6482576	19	2.9	18	78	13	54	25	1	0	73	0.94
6482553--6482578	13	2.0	13	100	0	52	23	0	0	76	0.78
6486407--6486440	2	17.0	2	100	0	68	50	0	0	50	1.00
6486796--6486826	4	7.8	4	100	0	62	51	22	0	25	1.48
6488904--6489002	35	2.8	35	93	0	171	18	15	39	27	1.90
6491536--6491571	2	18.0	2	100	0	72	50	0	0	50	1.00
6491808--6491864	28	2.0	29	82	3	71	56	0	3	40	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6505563--6505899	168	2.0	167	98	1	665	33	20	13	32	1.91
6507603--6507745	35	4.0	35	76	7	137	23	32	9	33	1.88
6508860--6509207	175	2.0	175	86	3	486	15	39	10	34	1.81
6514124--6514156	5	6.6	5	96	0	57	36	0	21	42	1.53
6523703--6523741	21	1.9	20	89	5	60	5	28	0	66	1.12
6523695--6523741	10	4.9	10	80	14	55	4	27	0	68	1.08
6525739--6525796	25	2.3	25	81	3	62	32	6	3	56	1.42
6529896--6529963	30	2.3	30	87	5	93	50	5	30	13	1.65
6529950--6529984	18	1.9	18	88	11	54	51	2	31	14	1.57
6530681--6530718	21	1.9	20	84	10	51	39	0	10	50	1.37
6537114--6537159	20	2.3	20	88	7	67	32	4	17	45	1.68
6537204--6537256	28	1.9	27	88	3	79	30	18	22	28	1.98
6537204--6537262	28	2.1	28	84	6	75	30	20	23	25	1.98
6545225--6545268	22	2.0	22	90	0	70	43	20	6	29	1.78
6554128--6554198	35	2.0	35	86	0	97	29	12	26	30	1.93
6562116--6562150	17	2.1	17	88	0	52	34	22	34	8	1.85
6565267--6565308	21	2.0	20	86	9	57	33	0	14	52	1.42
6567722--6567755	14	2.4	14	85	0	50	47	20	5	26	1.73
6567812--6568033	101	2.2	102	83	4	279	39	14	16	29	1.88
6569470--6569523	21	2.6	20	77	8	54	20	5	1	72	1.14
6570541--6570599	13	4.7	12	73	22	50	27	0	1	71	0.96
6570566--6570601	15	2.5	14	86	8	54	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6570541--6570601	21	3.0	20	77	18	65	26	0	1	72	0.94
6571056--6571101	23	2.0	23	91	0	74	10	21	17	50	1.77
6571242--6571267	3	8.7	3	100	0	52	0	34	34	30	1.58
6578750--6578805	28	2.0	28	100	0	112	28	10	21	39	1.87
6583116--6583142	3	9.0	3	100	0	54	33	0	33	33	1.58
6586281--6586370	45	2.0	44	82	6	110	44	18	12	24	1.84
6604063--6604154	44	2.1	44	97	0	175	31	9	26	32	1.89
6617018--6617068	15	3.4	15	83	0	66	31	3	15	49	1.63
6617103--6617142	5	8.2	5	86	5	55	40	2	22	35	1.68
6619531--6619590	30	2.1	29	81	6	68	30	6	23	40	1.80
6627809--6627886	38	2.1	38	97	0	147	33	7	21	37	1.82
6628537--6628564	12	2.3	12	100	0	56	28	0	21	50	1.49
6630173--6630248	2	40.5	2	79	17	83	48	2	1	47	1.24
6630173--6630237	9	7.0	9	79	10	69	47	1	1	49	1.20
6630173--6630248	11	6.8	11	77	18	77	48	2	1	47	1.24
6630176--6630248	15	4.7	15	83	9	92	49	2	1	46	1.24
6641544--6641583	2	21.5	2	85	14	59	0	45	0	55	0.99
6641546--6641583	13	3.0	13	96	3	69	0	44	0	55	0.99
6647216--6647415	100	2.0	100	89	0	301	51	8	11	28	1.67
6651777--6651835	20	3.0	20	80	7	68	52	0	6	40	1.28
6664720--6664836	37	3.2	37	89	4	182	28	9	37	24	1.87
6665327--6665364	20	2.0	20	89	5	60	31	31	23	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6668893--6668930	20	1.9	20	94	0	67	52	10	2	34	1.50
6670404--6670460	26	2.3	24	84	6	69	8	22	3	64	1.37
6682474--6682514	21	1.9	22	90	5	66	51	7	24	17	1.70
6682474--6682517	20	2.1	21	84	12	56	54	6	22	15	1.65
6683351--6683446	40	2.4	40	98	0	183	39	4	11	44	1.60
6685038--6685083	19	2.4	20	82	10	60	54	0	2	43	1.12
6708595--6708625	15	2.1	15	93	0	53	32	0	9	58	1.31
6716690--6716850	42	3.8	42	88	0	205	22	31	17	27	1.97
6716690--6716850	84	1.9	85	87	3	236	22	31	17	27	1.97
6721835--6721939	52	2.0	51	89	5	158	43	11	13	31	1.79
6722180--6722212	16	2.1	16	88	5	50	54	18	6	21	1.64
6738177--6738235	28	2.1	28	100	0	118	37	13	25	23	1.92
6752950--6752995	22	2.1	22	100	0	92	21	13	34	30	1.91
6757460--6757488	9	3.0	10	90	10	51	41	0	6	51	1.28
6773734--6773792	28	2.1	28	84	6	75	20	22	23	33	1.97
6779713--6779887	87	2.0	87	97	0	332	29	26	16	28	1.96
6784115--6784158	10	4.3	11	81	18	51	0	25	9	65	1.21
6785012--6785054	18	2.4	19	88	7	63	58	0	2	39	1.11
6836295--6836444	82	1.8	81	91	1	246	42	4	5	48	1.47
6836295--6836473	82	2.2	81	86	5	238	41	3	5	48	1.45
6837356--6837380	8	3.1	8	100	0	50	40	36	0	24	1.55
6840660--6840684	12	2.1	12	100	0	50	44	24	0	32	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6842337--6842553	86	2.6	83	82	7	280	41	4	14	40	1.66
6842607--6842677	26	2.8	26	82	14	71	63	7	15	14	1.50
6849529--6849590	15	4.1	15	85	2	70	53	0	3	43	1.17
6849532--6849608	35	2.2	35	79	4	84	53	0	3	42	1.19
6849544--6849630	15	5.6	16	73	17	53	55	0	4	40	1.21
6849779--6849875	33	3.1	32	83	12	112	27	2	0	70	0.99
6849779--6849879	34	3.2	33	83	10	113	27	1	0	70	0.98
6849779--6849851	31	2.4	28	79	18	83	26	2	0	71	1.00
6849776--6849874	16	6.6	16	64	23	54	28	2	0	69	0.99
6849775--6849889	27	4.6	26	69	19	82	29	1	0	68	0.99
6850772--6850812	18	2.1	21	86	13	61	0	4	17	78	0.93
6851435--6851463	13	2.1	14	93	6	51	72	3	0	24	1.00
6854053--6854108	13	4.5	13	78	17	64	58	0	0	41	0.98
6862949--6863006	24	2.5	22	74	17	55	58	12	3	25	1.49
6863258--6863288	14	2.1	15	94	5	55	12	12	0	74	1.08
6869572--6869608	16	2.3	16	85	0	56	62	0	37	0	0.96
6869567--6869608	13	3.2	13	82	0	57	59	0	38	2	1.10
6883151--6883200	24	2.0	25	85	11	68	74	0	0	26	0.83
6883160--6883190	13	2.3	13	94	5	53	80	0	0	19	0.71
6887971--6888021	17	2.9	16	78	18	57	66	1	0	31	1.03
6890562--6890613	27	1.9	27	84	0	68	26	11	30	30	1.92
6892135--6892243	36	3.0	36	87	0	146	31	33	11	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6892138--6892345	36	5.6	38	73	10	119	28	35	12	24	1.92
6892205--6892349	77	1.9	73	86	5	200	26	37	12	23	1.90
6892339--6892367	14	2.1	14	100	0	58	20	58	6	13	1.58
6893623--6893659	19	1.9	19	89	10	58	70	0	24	5	1.08
6905633--6905729	42	2.3	42	89	0	140	20	34	23	21	1.97
6908052--6908077	2	13.0	2	100	0	52	50	0	0	50	1.00
6908007--6908151	74	2.0	73	100	0	281	40	9	9	39	1.71
6908126--6908153	2	14.0	2	100	0	56	50	0	0	50	1.00
6917587--6917672	30	2.7	31	80	10	86	23	8	22	46	1.78
6920757--6921085	179	1.8	179	88	2	500	33	13	16	36	1.88

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