genome.fa.s5.2.7.7.80.10.50.1000.89.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  89  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)
32798921--32798949	3	10.0	3	92	7	51	31	0	0	68	0.89
32799967--32800014	24	2.0	24	92	8	80	14	37	12	35	1.84
32800012--32800049	8	4.5	8	87	12	58	23	0	0	76	0.79
32800012--32800061	17	2.9	18	86	13	63	24	0	2	74	0.93
32800014--32800108	8	10.4	9	71	17	56	31	0	1	67	0.98
32800015--32800108	25	3.6	25	70	20	68	31	0	1	67	0.98
32801196--32801229	18	1.9	18	88	5	52	32	0	11	55	1.36
32805637--32805722	22	3.9	22	80	11	104	25	5	20	47	1.72
32805807--32805961	23	6.9	23	74	6	93	42	24	9	23	1.83
32805825--32805886	23	2.7	23	94	0	106	37	29	9	24	1.87
32805894--32805984	44	2.1	44	85	8	123	45	20	9	24	1.82
32806084--32806214	60	2.2	60	90	2	201	41	17	8	32	1.80
32807133--32807201	15	4.6	15	84	10	88	78	0	2	18	0.88
32807133--32807201	31	2.3	30	85	11	97	78	0	2	18	0.88
32807131--32807201	23	3.2	21	77	13	72	78	0	2	18	0.86
32807493--32807517	10	2.5	10	100	0	50	76	16	0	8	1.02
32808774--32808821	16	3.0	15	90	6	60	70	4	0	25	1.04
32808776--32808830	3	18.7	3	78	14	53	67	3	0	29	1.08
32808776--32808820	19	2.4	18	82	10	54	68	4	0	26	1.08
32813942--32813993	22	2.4	22	93	0	86	46	3	26	23	1.69
32831993--32832034	21	2.0	21	95	0	75	42	9	7	40	1.65
32832143--32832188	24	2.0	24	91	8	78	67	4	8	19	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32832236--32832329	14	7.1	14	82	11	85	59	0	0	40	0.97
32832240--32832322	19	4.2	21	75	21	74	59	0	0	40	0.98
32832240--32832328	33	2.7	34	80	15	114	59	0	0	40	0.97
32832262--32832325	19	3.6	19	78	20	84	59	0	0	40	0.97
32832235--32832329	47	2.1	45	88	11	140	58	0	0	41	0.98
32834316--32834377	20	3.0	20	76	2	70	30	8	16	45	1.76
32834562--32834607	21	2.2	21	88	0	65	52	13	2	32	1.52
32834648--32834734	21	4.1	22	76	8	65	48	18	6	26	1.73
32834823--32834887	21	3.1	21	88	2	96	49	23	4	23	1.68
32834823--32834879	10	5.5	11	73	10	57	49	24	3	22	1.66
32839923--32839974	25	2.3	22	75	15	52	73	1	1	23	1.04
32839933--32839972	12	3.2	12	82	6	53	75	2	2	20	1.04
32841199--32841263	3	21.7	3	93	6	114	67	0	0	32	0.91
32841596--32841676	10	7.6	11	70	22	50	69	1	1	28	1.04
32841619--32841677	18	2.8	22	82	14	63	67	1	0	30	1.00
32841704--32841740	16	2.2	17	90	4	58	81	0	0	18	0.70
32842092--32842162	15	4.4	17	75	16	62	70	0	4	25	1.05
32842096--32842166	14	4.9	14	73	16	56	70	0	4	25	1.05
32844407--32844436	2	15.5	2	93	6	53	53	0	0	46	1.00
32855513--32855578	33	2.0	33	93	0	114	46	10	7	34	1.67
32863928--32864398	148	3.2	148	85	1	615	24	29	11	35	1.90
32877197--32877523	113	2.9	113	92	0	564	26	25	14	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32878711--32878794	39	2.2	39	97	0	159	36	17	17	27	1.93
32886644--32886668	13	1.9	13	100	0	50	72	0	0	28	0.86
32891014--32891246	119	2.0	118	88	5	346	33	8	7	49	1.61
32892604--32892648	23	2.0	23	90	0	72	37	20	8	33	1.83
32909924--32909997	31	2.3	33	88	4	107	48	5	22	22	1.71
32921398--32921622	76	2.9	76	85	0	297	24	21	12	42	1.86
32923475--32923537	31	2.0	31	87	0	90	49	11	11	28	1.72
32924404--32924613	108	1.9	108	91	1	341	42	4	14	37	1.67
32925711--32925863	75	2.0	75	88	0	225	22	20	11	45	1.83
32945619--32945899	78	3.6	78	81	1	314	37	13	16	32	1.87
32954099--32954179	38	2.3	34	89	8	117	40	4	25	28	1.76
32954579--32954618	19	2.1	19	86	9	55	52	10	0	37	1.35
32959627--32959873	35	7.2	35	88	3	362	25	18	46	8	1.77
32959632--32959871	33	7.1	33	88	2	336	25	19	46	8	1.77
32959627--32959960	68	5.2	65	82	7	336	26	19	45	8	1.78
32959839--32959898	25	2.4	25	94	0	102	30	23	41	5	1.75
32959836--32959960	60	2.1	60	87	3	180	28	21	43	6	1.77
32959903--32959988	25	3.5	24	80	6	100	31	19	43	5	1.75
32967063--32967132	29	2.4	29	85	0	86	40	8	10	41	1.69
32967123--32967390	79	3.3	80	79	6	292	32	10	11	45	1.74
32967083--32967390	160	1.9	163	83	4	399	34	9	11	44	1.73
32967175--32967371	26	7.4	26	67	18	84	32	9	10	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32967529--32967553	13	1.9	13	100	0	50	40	16	16	28	1.89
32967692--32967729	17	2.2	17	95	0	67	18	10	15	55	1.68
32968504--32968823	162	2.0	162	96	0	586	21	25	21	31	1.98
32971006--32971037	15	2.1	15	94	0	55	28	15	25	31	1.96
32988723--32988908	55	3.4	54	81	3	246	11	14	32	41	1.82
32988955--32989054	31	3.2	31	85	2	103	24	18	22	36	1.95
32988975--32989067	31	3.0	31	88	3	125	25	16	22	35	1.94
32992732--32993114	31	12.4	31	71	6	186	26	16	30	26	1.97
32992953--32993123	93	1.8	93	82	5	220	25	17	29	28	1.97
32992684--32993114	155	2.8	155	90	0	657	26	17	29	27	1.97
32993280--32993337	14	4.0	14	80	8	62	53	1	8	36	1.42
32993275--32993337	30	2.1	30	87	0	90	52	3	7	36	1.47
32995303--32995773	156	3.0	156	89	0	710	26	19	19	34	1.96
32997434--32997674	31	7.8	31	90	0	311	36	20	18	24	1.95
32998278--32998644	47	7.8	47	80	3	344	21	30	19	28	1.97
33003097--33003149	8	7.0	7	77	14	52	22	0	0	77	0.77
33003080--33003149	15	4.3	17	78	12	60	21	2	0	75	0.93
33003086--33003138	25	2.1	24	86	6	70	18	1	0	79	0.83
33003088--33003149	15	4.0	15	81	12	72	22	1	0	75	0.88
33003568--33003607	9	4.2	9	81	12	53	22	0	0	77	0.77
33003568--33003606	14	2.7	14	88	4	60	23	0	0	76	0.78
33003577--33003610	17	2.0	17	88	11	52	23	0	0	76	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33005004--33005089	29	3.0	29	77	6	68	29	2	3	65	1.22
33005189--33005227	11	3.7	10	86	3	51	2	0	12	84	0.72
33005259--33005717	38	12.2	38	88	3	633	42	19	14	23	1.88
33005259--33005717	113	4.1	114	87	3	633	42	19	14	23	1.88
33017667--33017760	43	2.2	41	80	14	93	20	9	1	69	1.23
33017869--33017935	16	4.6	14	79	15	66	20	1	1	76	0.95
33017895--33017940	13	3.7	13	80	16	53	26	0	0	73	0.83
33017869--33017935	15	4.5	15	72	18	52	20	1	1	76	0.95
33017991--33018034	18	2.5	17	85	10	54	27	2	0	70	0.99
33018347--33018385	8	4.5	8	82	17	51	15	0	0	84	0.62
33018332--33018385	27	1.9	27	88	7	81	20	1	0	77	0.86
33018342--33018387	9	5.1	9	84	10	58	19	2	0	78	0.86
33018342--33018383	17	2.5	17	88	3	59	19	2	0	78	0.86
33018347--33018400	27	2.0	26	82	10	65	18	3	0	77	0.91
33019724--33019771	14	3.4	14	77	13	53	14	2	0	83	0.74
33019734--33019808	9	7.8	9	70	11	51	18	2	1	77	0.96
33019756--33019805	20	2.5	21	80	6	59	24	2	2	72	1.06
33019727--33019820	49	2.0	47	81	12	111	20	2	2	75	1.01
33022057--33022134	27	3.0	25	77	7	77	44	12	28	14	1.81
33022064--33022139	25	3.0	24	76	14	73	43	14	27	14	1.84
33022092--33022151	25	2.4	25	79	17	72	48	10	25	16	1.77
33025718--33025778	29	2.1	29	100	0	122	45	31	6	16	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33033123--33033162	20	2.0	20	90	0	62	27	12	32	27	1.93
33034498--33034543	23	2.0	24	83	12	60	36	10	0	52	1.37
33034592--33034658	27	2.3	28	82	10	73	40	0	5	53	1.25
33034598--33034648	15	3.2	16	76	20	54	37	0	5	56	1.23
33037864--33037999	26	5.3	26	77	5	123	44	10	11	33	1.74
33037918--33037970	24	2.2	24	93	3	88	35	11	15	37	1.83
33037936--33038104	80	2.1	78	81	7	189	43	9	12	34	1.75
33048964--33049019	2	28.0	2	82	7	60	48	3	3	44	1.37
33051628--33051695	34	2.0	34	97	0	127	25	5	7	61	1.45
33056457--33056487	12	2.7	11	90	9	53	0	9	6	83	0.79

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