genome.fa.s5.2.7.7.80.10.50.1000.82.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  82  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)
30506933--30506962	8	3.8	8	95	0	51	36	0	0	63	0.95
30506944--30506989	22	2.3	20	82	17	60	32	0	0	67	0.91
30527663--30527708	15	3.1	14	78	9	56	39	4	2	54	1.32
30531105--30531212	54	2.0	54	98	0	207	28	18	15	37	1.92
30537680--30537740	2	31.0	2	90	3	97	1	47	0	49	1.11
30542904--30542942	14	2.9	13	85	7	51	41	0	2	56	1.13
30543586--30543634	24	2.2	21	82	10	53	48	2	0	48	1.12
30547238--30547272	16	2.2	16	89	0	52	40	2	8	48	1.49
30547523--30547779	129	2.0	129	93	1	435	22	18	30	28	1.97
30548879--30548919	10	4.3	10	75	12	50	17	7	0	75	1.02
30548865--30548919	28	2.0	28	82	13	69	18	5	1	74	1.10
30548865--30548902	16	2.2	18	86	9	53	18	2	2	76	1.02
30548900--30548946	19	2.2	20	85	14	60	8	17	0	74	1.05
30551351--30551414	30	2.1	30	100	0	128	23	17	9	50	1.75
30551675--30552234	276	2.0	277	97	1	1052	51	10	11	26	1.70
30552503--30552529	14	1.9	14	100	0	54	40	0	0	59	0.98
30554391--30554443	21	2.5	21	78	3	61	20	13	22	43	1.86
30554478--30554587	23	4.8	23	84	5	125	34	30	12	22	1.92
30554498--30554644	23	6.1	25	82	7	110	36	26	12	24	1.91
30555749--30555777	2	14.5	2	100	0	58	51	48	0	0	1.00
30556036--30556066	2	15.5	2	100	0	62	51	48	0	0	1.00
30555650--30556231	286	2.0	287	97	1	1105	43	16	9	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30556227--30556268	2	21.5	2	95	4	77	50	0	0	50	1.00
30559185--30559231	2	23.5	2	100	0	94	51	0	0	48	1.00
30559764--30559796	2	17.0	2	93	6	59	51	0	0	48	1.00
30563316--30563344	2	14.5	2	100	0	58	51	48	0	0	1.00
30565354--30565410	16	3.5	17	76	13	57	66	1	0	31	1.02
30569287--30569318	2	16.0	2	100	0	64	50	0	0	50	1.00
30569532--30569595	24	2.9	21	75	13	58	62	4	0	32	1.16
30569785--30569818	16	2.0	18	88	11	54	50	0	0	50	1.00
30581855--30582009	79	2.0	79	94	0	274	17	16	12	54	1.71
30595537--30595572	18	1.9	19	88	5	56	41	2	0	55	1.14
30597106--30597148	15	2.8	15	82	3	59	60	13	0	25	1.34
30606739--30606778	17	2.4	17	83	4	55	47	15	10	27	1.77
30607795--30607828	14	2.4	15	85	14	54	61	0	0	38	0.96
30612352--30612378	14	1.9	14	100	0	54	66	14	3	14	1.38
30619690--30619748	25	2.3	26	80	16	77	66	0	0	33	0.92
30619649--30619748	51	1.9	52	82	8	123	59	4	0	37	1.17
30619604--30620068	176	2.5	185	82	11	533	52	3	1	43	1.25
30620080--30620131	27	2.0	26	82	10	63	53	0	1	44	1.11
30620161--30620246	40	2.1	42	86	4	122	53	2	1	43	1.21
30620238--30620294	27	2.1	27	80	6	62	54	0	1	43	1.10
30620625--30620954	175	1.9	174	82	5	416	32	20	10	36	1.87
30621082--30621126	18	2.5	18	81	0	54	28	8	20	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30621287--30621319	17	1.9	17	88	11	50	12	3	18	66	1.36
30621284--30621347	31	2.1	31	81	0	74	17	1	12	68	1.28
30622434--30622470	2	19.0	2	94	5	67	51	0	0	48	1.00
30627818--30627899	31	2.6	31	86	3	103	53	8	14	23	1.68
30627851--30627931	31	2.6	31	90	0	117	49	6	18	25	1.71
30628695--30628901	108	1.9	109	86	3	292	44	3	15	36	1.64
30638406--30638462	20	3.0	18	73	16	53	21	5	1	71	1.14
30638578--30638629	18	2.8	19	83	16	65	26	3	0	69	1.06
30645723--30645774	2	26.0	2	100	0	104	50	0	0	50	1.00
30649080--30649121	21	2.0	21	90	0	66	59	0	26	14	1.35
30662918--30662960	15	2.9	15	92	0	68	41	0	0	58	0.98
30662942--30662998	23	2.7	21	79	12	71	38	0	1	59	1.08
30662930--30662999	20	3.3	21	72	18	63	38	0	1	60	1.06
30663029--30663063	16	2.2	16	89	0	52	51	2	2	42	1.31
30663036--30663129	8	11.4	8	69	9	55	45	2	2	50	1.25
30663146--30663180	17	1.9	18	88	11	54	5	14	0	80	0.89
30664045--30664122	10	7.9	10	73	17	56	47	2	1	48	1.23
30664045--30664099	19	2.9	19	89	8	85	49	1	0	49	1.11
30664074--30664167	45	2.1	45	88	4	136	45	2	5	46	1.37
30665320--30665363	17	2.4	19	77	14	56	75	0	0	25	0.81
30665331--30665368	17	2.2	17	90	0	58	68	2	0	28	1.03
30665424--30665452	3	10.0	3	92	7	51	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30665478--30665514	18	2.1	18	90	10	58	83	0	2	13	0.74
30666649--30666745	30	3.2	30	100	0	194	30	9	31	27	1.88
30667707--30667770	27	2.4	26	86	2	92	51	0	0	48	1.00
30667722--30667781	27	2.2	27	75	0	66	56	0	1	41	1.09
30671145--30671182	17	2.3	18	82	17	55	34	0	0	65	0.93
30672083--30672161	26	3.1	26	82	8	74	72	0	6	21	1.07
30706317--30706510	101	1.9	103	88	2	293	25	7	11	55	1.62
30709223--30709263	21	1.9	22	85	5	57	9	9	4	75	1.17
30721835--30721887	25	2.1	25	82	6	63	58	0	16	24	1.38
30722312--30722408	32	3.0	32	83	8	101	64	1	6	27	1.23
30724757--30724815	2	29.0	2	91	3	91	45	1	1	49	1.22
30731226--30731330	45	2.3	45	98	0	201	19	25	12	42	1.86
30733326--30733357	2	16.0	2	100	0	64	50	0	0	50	1.00
30751300--30751353	27	2.0	26	82	10	65	27	11	9	51	1.67
30753549--30753592	23	2.0	22	81	4	52	40	0	6	52	1.28
30753660--30753753	45	2.1	45	83	0	116	44	5	5	44	1.49
30754642--30754707	33	2.0	33	100	0	132	30	24	9	36	1.86
30766475--30766507	15	2.3	15	90	10	52	48	0	0	51	1.00
30768133--30768216	30	2.8	28	75	10	78	57	0	2	40	1.12
30788008--30788037	3	10.0	3	100	0	60	33	0	0	66	0.92
30788719--30788761	20	2.2	20	100	0	86	18	23	4	53	1.63
30789017--30789126	54	2.0	54	100	0	220	25	10	20	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30789817--30789861	18	2.5	18	89	7	65	53	8	6	31	1.58
30790078--30790175	51	1.9	51	91	4	162	43	7	17	31	1.76
30791097--30791136	18	2.2	18	86	8	55	45	7	5	42	1.54
30791927--30791993	23	3.0	22	82	4	64	50	1	0	47	1.10
30792831--30792883	22	2.4	22	81	12	56	52	0	0	47	1.00
30793195--30793331	73	1.9	71	86	10	197	53	5	10	30	1.58
30793275--30793320	24	1.9	24	95	0	83	54	8	4	32	1.51
30793205--30793317	49	2.3	50	76	10	133	54	7	8	29	1.57
30800334--30800358	2	12.5	2	100	0	50	48	0	0	52	1.00
30818216--30818611	45	8.8	45	67	7	140	34	16	24	23	1.95
30818216--30818627	90	4.6	90	81	3	425	35	17	24	23	1.95
30822934--30822980	19	2.4	19	82	13	51	53	6	8	31	1.57
30823343--30823375	15	2.2	15	94	0	57	45	9	0	45	1.35
30827065--30827128	31	2.1	31	90	0	101	29	1	15	53	1.52
30829344--30829385	21	2.0	20	86	4	57	66	2	4	26	1.23
30830927--30830957	2	15.5	2	93	0	53	51	0	0	48	1.00
30831850--30831878	3	9.7	3	100	0	58	0	34	0	65	0.93
30856790--30856823	10	3.3	10	88	8	50	29	0	2	67	1.05
30866488--30866605	53	2.2	51	76	15	123	57	0	3	38	1.15
30867041--30867078	20	1.9	20	94	0	67	52	0	0	47	1.00
30867149--30867235	16	5.4	16	70	16	63	49	0	2	48	1.13
30867149--30867234	22	3.9	24	70	21	80	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30867154--30867244	42	2.2	42	86	4	121	46	0	2	51	1.13
30869417--30869804	198	2.0	197	99	0	758	40	6	6	45	1.57
30873073--30873104	2	16.0	2	93	0	55	46	3	50	0	1.17
30873916--30873968	20	2.6	19	74	11	52	69	1	0	28	0.99
30873920--30873980	23	2.5	23	81	10	59	72	1	0	26	0.94
30890416--30890449	10	3.3	10	88	8	50	29	0	2	67	1.05
30891195--30891224	2	15.0	2	100	0	60	50	0	0	50	1.00
30893774--30893811	14	2.5	15	87	12	60	0	10	2	86	0.66
30893774--30893812	10	3.9	10	86	10	53	0	10	2	87	0.65
30893774--30893814	15	2.7	16	85	11	59	0	12	2	85	0.70

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