genome.fa.s5.2.7.7.80.10.50.1000.22.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  22  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)
8145386--8145427	18	2.4	17	92	4	66	30	2	0	66	1.04
8145582--8145647	5	13.4	5	80	15	75	19	1	0	78	0.82
8145962--8146055	8	11.6	8	67	15	50	19	1	4	75	1.03
8146245--8146293	13	3.7	13	82	12	55	24	0	0	75	0.80
8146261--8146302	7	5.6	7	86	13	57	21	0	0	78	0.75
8146249--8146302	15	3.7	15	85	11	60	24	0	0	75	0.80
8161406--8161437	12	2.7	12	90	0	55	53	37	9	0	1.34
8164892--8164917	6	4.3	6	100	0	52	34	30	34	0	1.58
8170573--8170597	6	4.2	6	100	0	50	16	0	0	84	0.63
8170982--8171031	2	25.0	2	95	0	91	48	2	0	50	1.12
8180555--8180618	18	3.6	18	72	2	67	43	17	10	28	1.82
8184970--8184994	6	4.2	6	100	0	50	16	0	32	52	1.44
8194646--8194675	2	15.0	2	100	0	60	50	0	50	0	1.00
8197861--8197959	46	2.2	46	83	3	119	34	19	11	35	1.87
8198473--8198533	28	2.2	28	85	5	81	16	19	9	54	1.70
8202655--8202850	9	20.3	9	67	15	81	76	1	17	4	1.01
8202648--8202803	19	9.3	16	69	15	75	76	0	19	3	0.98
8202663--8202741	23	3.4	23	75	14	65	78	1	18	1	0.89
8202685--8202743	15	3.9	15	82	6	66	76	1	22	0	0.88
8202648--8202845	8	23.4	8	68	18	82	76	1	17	5	1.01
8205794--8205967	71	2.4	70	81	4	188	44	13	5	36	1.67
8205794--8205967	35	4.9	35	84	2	195	44	13	5	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8205932--8205973	22	1.9	22	100	0	84	42	9	9	38	1.70
8207480--8207518	20	2.0	20	100	0	78	28	15	20	35	1.93
8210874--8210909	12	2.8	13	91	4	56	33	0	0	66	0.92
8211067--8211117	24	2.1	24	82	10	59	35	9	11	43	1.75
8215604--8215675	37	1.9	37	88	0	108	36	20	20	22	1.96
8215537--8215695	37	4.3	37	70	4	106	35	22	22	20	1.96
8239000--8239149	35	4.3	34	78	8	160	44	12	6	36	1.68
8239002--8239149	71	2.1	68	86	3	206	43	12	6	37	1.68
8249112--8249154	2	21.5	2	100	0	86	48	0	0	51	1.00
8250417--8250579	78	2.1	78	84	2	211	33	11	20	33	1.89
8251987--8252012	6	4.3	6	100	0	52	30	0	0	69	0.89
8254682--8254706	13	1.9	13	100	0	50	48	0	0	52	1.00
8255860--8255923	28	2.2	29	83	2	76	43	20	7	28	1.79
8259456--8259480	13	1.9	13	100	0	50	48	0	0	52	1.00
8261702--8261746	22	2.0	24	86	8	67	53	11	15	20	1.72
8262702--8262735	17	2.0	17	88	0	50	50	2	0	47	1.16
8262701--8263365	43	15.2	43	64	18	164	51	2	2	43	1.27
8262767--8263320	176	3.1	175	87	5	778	51	2	1	43	1.27
8262978--8263033	27	2.1	27	83	6	69	53	0	1	44	1.11
8269873--8269910	19	2.0	19	89	0	58	0	31	7	60	1.25
8274032--8274067	16	2.2	16	95	0	63	50	5	2	41	1.40
8274136--8274217	43	1.9	43	84	0	110	21	32	17	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8281857--8281901	4	11.2	4	86	9	65	51	22	2	24	1.60
8285414--8285444	14	2.2	14	94	0	53	41	6	25	25	1.79
8286159--8286200	2	21.0	2	95	0	75	47	0	2	50	1.14
8286278--8286361	43	2.0	43	95	0	150	25	35	19	20	1.95
8287784--8287877	13	7.1	13	68	15	50	31	3	1	63	1.17
8288239--8288264	12	2.2	12	100	0	52	42	7	7	42	1.62
8290658--8290711	27	2.0	27	96	0	99	35	25	16	22	1.95
8300737--8300766	12	2.5	12	94	0	51	60	0	10	30	1.30
8301862--8301911	21	2.4	21	86	6	66	46	10	8	36	1.67
8301905--8301948	21	2.1	21	95	0	79	43	15	4	36	1.68
8302121--8302176	21	2.7	21	85	0	67	46	23	5	25	1.73
8302477--8302516	21	1.9	21	89	0	62	45	12	7	35	1.70
8305202--8305240	2	19.5	2	100	0	78	51	48	0	0	1.00
8305254--8305286	2	16.5	2	100	0	66	0	0	48	51	1.00
8305386--8305422	2	20.0	2	84	15	53	48	0	0	51	1.00
8305501--8305555	28	2.0	28	88	0	83	23	3	23	49	1.66
8312359--8312391	2	16.5	2	93	0	57	51	45	0	3	1.16
8324964--8325104	42	3.3	42	90	3	212	26	17	32	23	1.97
8325138--8325171	2	17.0	2	100	0	68	50	0	0	50	1.00
8328595--8328720	47	2.8	45	81	9	155	22	12	21	43	1.86
8329726--8329765	20	2.0	20	90	0	62	17	37	7	37	1.78
8330620--8330721	52	2.0	52	98	0	195	26	9	40	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8336395--8336476	37	2.2	37	97	0	155	25	7	39	28	1.82
8336526--8336550	2	12.5	2	100	0	50	48	0	0	52	1.00
8336550--8336580	2	15.5	2	100	0	62	0	0	48	51	1.00
8336449--8336755	157	2.0	153	98	1	578	28	3	28	38	1.75
8336683--8336707	2	12.5	2	100	0	50	48	0	0	52	1.00
8336707--8336737	2	15.5	2	100	0	62	0	0	48	51	1.00
8339401--8339463	30	2.1	30	90	0	99	55	12	12	19	1.68
8339932--8339971	21	2.0	20	85	5	53	67	0	7	25	1.16
8352141--8352264	42	2.9	42	76	12	126	26	10	17	45	1.81
8362926--8362958	17	1.9	17	93	0	57	33	12	33	21	1.90
8369744--8369819	35	2.2	35	83	9	93	28	22	15	32	1.95
8370734--8370775	21	2.0	21	85	0	57	19	26	16	38	1.92
8375555--8375592	19	2.0	19	94	0	67	42	28	0	28	1.56
8376271--8376308	20	1.9	20	89	10	60	47	0	18	34	1.49
8377660--8377702	15	2.7	15	85	7	50	48	0	2	48	1.14
8378099--8378169	26	2.8	26	93	6	119	50	0	0	49	1.00
8378099--8378178	26	3.1	26	89	7	92	53	0	0	46	1.00
8388543--8388594	20	2.7	20	96	3	97	32	9	26	30	1.89
8391103--8391208	54	2.0	54	98	0	203	41	15	12	31	1.83
8396275--8396326	22	2.5	22	75	15	56	50	1	1	46	1.23
8398784--8399002	34	6.8	34	74	12	174	19	17	25	36	1.94
8398779--8398912	68	2.0	68	90	0	214	20	17	25	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8401050--8401086	2	18.5	2	100	0	74	51	0	0	48	1.00
8409505--8409529	13	1.9	13	100	0	50	52	0	0	48	1.00
8415205--8415236	16	2.1	16	94	5	57	34	0	0	65	0.93
8415166--8415531	118	3.0	116	78	14	348	39	2	2	56	1.26
8415186--8415442	131	2.0	130	86	5	367	40	1	2	55	1.25
8415368--8415475	42	2.6	42	77	7	94	37	0	0	60	1.10
8415358--8415530	69	2.4	72	76	16	198	38	1	1	59	1.12
8420667--8420775	55	2.0	54	98	0	200	34	13	18	32	1.90
8428358--8428394	18	2.1	18	94	0	65	35	35	0	29	1.58
8434619--8434685	22	3.0	22	73	0	62	17	8	35	37	1.82
8434714--8434756	22	2.0	22	90	0	68	18	4	39	37	1.72
8435663--8435746	42	2.0	42	88	0	123	30	17	20	30	1.96
8437284--8437477	72	2.7	72	80	8	243	39	19	20	20	1.93
8437284--8437485	73	2.8	72	79	8	250	37	20	20	21	1.94
8444755--8444809	23	2.4	23	81	3	58	30	30	14	23	1.94
8444692--8444869	83	2.1	83	86	0	239	37	25	12	24	1.90
8444882--8444940	23	2.6	22	76	5	64	35	28	8	27	1.86
8446320--8446422	47	2.2	47	84	3	127	31	21	15	32	1.94
8447625--8447687	33	1.9	33	90	0	99	23	9	44	22	1.82
8449749--8450054	25	12.2	25	80	5	296	42	22	13	21	1.88
8450049--8450165	45	2.6	45	75	5	103	41	26	11	20	1.87
8454594--8454635	20	2.2	20	86	4	59	71	11	14	2	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8456734--8456890	60	2.6	59	80	4	170	25	22	18	33	1.97
8461666--8461698	2	16.5	2	93	0	57	48	3	0	48	1.17
8464327--8464365	19	2.0	19	90	5	60	25	28	0	46	1.53
8464335--8464373	19	2.1	19	90	0	60	23	28	2	46	1.65
8464666--8464703	10	3.9	10	83	16	53	68	0	0	31	0.90
8464669--8464713	18	2.6	17	86	6	63	71	0	2	26	0.98
8464672--8464713	17	2.4	17	92	4	66	73	0	2	23	0.94
8465843--8465915	27	2.6	28	82	12	78	43	1	1	53	1.17
8465876--8465977	16	6.7	15	70	26	72	47	1	1	49	1.24
8465876--8465977	46	2.2	46	100	0	204	47	1	1	49	1.24

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