genome.fa.s5.2.7.7.80.10.50.1000.53.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  53  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)
20087889--20087937	25	2.0	25	91	0	80	34	10	10	44	1.72
20093343--20093532	68	2.8	67	86	4	247	38	10	18	32	1.84
20103140--20103170	14	2.2	14	94	0	53	45	16	0	38	1.47
20104051--20104193	60	2.4	60	83	2	180	39	21	15	23	1.91
20104555--20104645	43	2.1	43	85	4	121	21	34	18	25	1.96
20109603--20109708	56	1.9	56	94	0	185	33	9	29	27	1.88
20111253--20111321	2	34.5	2	100	0	138	50	0	0	49	1.00
20120245--20120291	22	2.1	23	84	4	60	51	19	6	23	1.70
20125181--20125316	36	3.7	38	81	8	147	26	38	13	20	1.90
20126995--20127035	21	2.0	21	90	0	64	21	19	19	39	1.93
20129632--20129669	14	2.9	13	88	11	60	21	0	2	76	0.91
20129627--20129668	18	2.3	19	91	4	68	21	0	2	76	0.90
20132577--20132616	18	2.2	19	86	4	55	50	7	0	42	1.30
20137005--20137078	39	1.9	38	86	2	103	35	16	18	29	1.93
20137508--20137616	43	2.5	43	76	8	105	25	35	17	21	1.95
20142849--20143015	36	4.6	36	77	5	133	29	39	11	19	1.87
20144326--20144358	12	2.6	13	85	9	50	57	0	33	9	1.30
20144585--20144638	15	3.6	15	79	16	67	22	0	1	75	0.89
20147350--20147509	54	3.0	54	91	1	268	19	13	40	26	1.88
20147350--20147434	29	3.1	29	62	19	72	17	14	40	28	1.88
20169007--20169102	35	2.7	36	80	3	113	29	33	10	27	1.90
20169007--20169119	37	3.1	37	82	2	140	30	30	8	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20170253--20170307	20	2.6	21	91	5	85	0	30	0	69	0.89
20171953--20172199	35	7.1	35	81	3	266	35	7	14	42	1.73
20171973--20172199	107	2.1	105	83	1	283	35	7	14	42	1.75
20171946--20172224	142	2.0	139	86	3	389	35	7	14	42	1.74
20172003--20172222	107	2.1	106	80	2	235	35	7	15	41	1.76
20179891--20179948	14	4.1	14	75	16	57	75	1	20	1	0.97
20179889--20179942	18	3.1	18	75	20	60	75	1	22	0	0.89
20179892--20179940	24	2.0	24	88	7	73	75	2	22	0	0.90
20181429--20181540	43	2.6	43	86	0	161	23	17	36	22	1.95
20201338--20201420	43	1.9	43	80	9	98	28	16	32	21	1.96
20203245--20203286	19	2.1	21	82	8	52	35	28	11	23	1.91
20209707--20209803	43	2.3	43	85	3	124	30	19	26	22	1.98
20213748--20213866	37	3.2	37	86	0	166	27	10	37	23	1.88
20214327--20214398	19	3.8	19	90	0	99	30	19	25	25	1.98
20227045--20227164	56	2.1	56	86	4	170	35	10	25	28	1.89
20231441--20231471	2	15.5	2	100	0	62	48	0	0	51	1.00
20231495--20231618	42	2.9	42	83	3	133	21	36	19	22	1.95
20231668--20231702	2	17.5	2	93	0	61	45	0	2	51	1.16
20234507--20234568	26	2.4	26	94	0	106	32	40	3	24	1.71
20234803--20234925	42	2.9	42	92	0	210	22	33	21	21	1.97
20239042--20239077	11	3.3	11	92	0	54	75	0	22	2	0.94
20240585--20240637	25	2.1	25	89	0	79	28	18	30	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20256727--20256771	21	2.1	21	100	0	90	48	4	15	31	1.65
20276028--20276068	21	1.9	22	85	5	57	21	21	4	51	1.67
20286453--20286558	38	2.7	40	85	2	144	21	13	40	24	1.89
20291250--20291291	2	21.0	2	90	0	66	45	2	2	50	1.27
20291332--20291485	42	3.7	42	78	3	166	22	33	22	22	1.97
20291516--20291541	2	13.0	2	100	0	52	50	0	0	50	1.00
20291616--20291645	2	15.0	2	100	0	60	50	0	0	50	1.00
20291516--20291709	104	1.9	101	93	4	327	40	18	6	34	1.75
20292196--20292243	23	2.1	23	84	7	62	33	29	0	37	1.58
20295722--20295746	13	1.9	13	100	0	50	48	8	0	44	1.32
20296870--20296922	28	1.9	27	88	3	79	28	16	18	35	1.93
20300753--20300778	2	13.0	2	100	0	52	50	0	0	50	1.00
20304575--20304612	2	19.0	2	88	0	58	44	0	5	50	1.24
20304653--20304806	42	3.7	42	78	3	166	22	33	22	22	1.97
20304837--20304862	2	13.0	2	100	0	52	50	0	0	50	1.00
20307991--20308031	2	21.5	2	81	18	52	48	0	2	48	1.14
20308047--20308157	43	2.6	43	85	2	143	26	19	33	20	1.97
20317262--20317299	2	19.5	2	94	5	69	50	0	0	50	1.00
20317337--20317376	2	19.5	2	89	5	62	50	2	0	47	1.14
20323938--20324117	39	4.6	38	79	12	188	28	36	12	22	1.90
20323970--20324092	42	3.0	42	83	11	166	30	33	10	25	1.90
20323938--20324117	78	2.3	80	82	9	212	28	36	12	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20326974--20327020	21	2.2	21	82	10	60	38	12	2	46	1.54
20337956--20338123	43	3.9	43	80	0	194	25	33	17	23	1.96
20351929--20351985	25	2.3	25	87	0	78	29	17	26	26	1.97
20357353--20357390	19	2.0	20	89	5	60	47	5	0	47	1.24
20360240--20360282	16	2.7	16	85	0	50	65	13	0	20	1.27
20361854--20361891	19	2.0	19	100	0	76	15	31	10	42	1.81
20367533--20367637	38	2.7	39	80	4	131	25	39	14	20	1.91
20382992--20383027	5	7.2	5	93	0	63	36	19	2	41	1.66
20398615--20398688	20	3.7	20	80	10	71	25	0	12	62	1.30
20404855--20404934	35	2.3	35	80	0	88	31	13	20	35	1.91
20405089--20405207	49	2.3	52	80	8	138	26	13	14	46	1.81
20410447--20410484	20	2.0	20	89	5	60	21	42	7	28	1.81
20410575--20410629	20	2.6	21	88	5	76	67	0	32	0	0.91
20415566--20415711	29	5.1	28	81	11	172	39	13	8	39	1.74
20415566--20415716	57	2.6	57	84	8	200	38	13	8	39	1.75
20419232--20419286	20	2.7	20	85	5	65	67	1	30	0	1.01
20423598--20423655	23	2.5	23	82	0	71	36	37	3	22	1.71
20423652--20423783	43	3.1	43	81	2	140	20	37	19	22	1.95
20431229--20431347	43	2.8	43	85	2	141	20	35	20	24	1.96
20435344--20435452	43	2.5	42	88	5	148	23	21	37	17	1.94
20435818--20435921	39	2.7	39	83	0	127	23	17	19	40	1.91
20439156--20439249	42	2.2	42	88	3	136	39	18	18	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20439534--20439575	18	2.3	18	87	0	57	64	16	9	9	1.49
20453043--20453143	38	2.6	39	85	3	132	20	18	39	20	1.92
20455603--20455716	42	2.7	42	81	1	120	22	33	16	27	1.96
20461361--20461394	14	2.4	14	90	0	50	26	2	26	44	1.69
20467858--20468013	37	4.2	37	92	3	251	27	10	35	26	1.89
20470819--20470956	74	1.9	74	92	0	231	33	14	17	34	1.90
20481149--20481254	38	2.7	39	85	5	135	23	40	15	20	1.90
20484815--20484902	30	2.9	30	76	8	90	51	17	7	23	1.71
20486475--20486671	72	2.7	74	79	7	249	26	22	14	36	1.92
20496443--20496543	43	2.3	43	89	0	139	24	32	17	24	1.97
20497320--20497361	20	2.1	20	86	8	59	50	9	26	14	1.73
20500764--20501050	29	9.9	29	83	5	341	36	12	11	39	1.80
20506926--20506962	11	3.5	11	78	14	51	0	32	0	67	0.91
20512803--20512858	20	2.8	20	91	0	94	62	0	35	1	1.06
20516747--20516841	43	2.2	43	90	0	145	27	37	14	20	1.91
20516747--20516853	43	2.5	43	87	3	144	27	35	14	22	1.93
20520321--20520415	43	2.2	43	88	1	138	25	17	31	25	1.97
20520335--20520449	43	2.7	42	87	4	158	24	18	35	21	1.95
20522781--20522810	2	15.0	2	100	0	60	50	0	0	50	1.00
20525565--20525590	12	2.2	12	100	0	52	30	23	0	46	1.53
20526416--20526829	23	17.9	23	70	2	209	30	13	32	23	1.92
20526614--20526786	70	2.5	70	89	0	256	28	16	32	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20526858--20526924	23	2.9	23	88	4	91	23	17	31	26	1.97
20527434--20527619	87	2.1	87	89	0	282	25	17	25	32	1.97
20527637--20527773	31	4.4	31	87	0	193	29	14	19	36	1.92
20531832--20531931	31	3.2	31	82	2	121	26	35	14	25	1.93
20531869--20532185	107	3.0	106	88	2	456	30	29	15	24	1.96
20532093--20532264	94	1.8	94	85	0	245	31	28	13	25	1.94
20548520--20548668	43	3.5	43	89	1	219	20	37	18	23	1.94
20552272--20552375	22	4.6	22	77	8	84	38	22	10	28	1.87
20554427--20554470	22	2.0	22	86	0	61	65	2	0	31	1.05
20557283--20557314	4	8.0	4	100	0	64	50	25	0	25	1.50

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