genome.fa.s6.2.7.7.80.10.50.1000.15.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: chr6
Parameters: 2 7 7 80 10 50 1000
Length:  26303135

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   

This is table  15  of  66  ( 7821 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)
5017261--5017333	27	2.7	27	84	2	83	35	10	8	45	1.69
5017181--5017460	126	2.2	127	80	4	305	32	14	9	43	1.77
5017385--5017462	28	2.8	28	75	14	88	32	12	11	43	1.79
5020000--5020025	13	2.0	13	100	0	52	46	7	0	46	1.31
5021393--5021430	19	2.0	19	94	0	67	42	28	0	28	1.56
5033615--5033659	2	22.5	2	95	0	81	48	48	2	0	1.13
5037208--5037242	2	17.5	2	100	0	70	51	48	0	0	1.00
5048104--5048143	19	2.2	19	86	4	55	50	0	5	45	1.23
5048945--5049049	34	3.0	34	82	5	129	20	9	33	37	1.85
5060298--5060350	25	2.1	25	100	0	106	39	13	11	35	1.80
5062867--5062954	44	2.0	44	88	0	131	31	12	17	38	1.87
5063450--5063516	34	2.0	34	88	5	100	29	20	16	32	1.95
5063450--5063540	34	2.7	34	83	5	96	29	20	16	32	1.95
5064242--5064343	43	2.4	43	88	0	150	34	10	20	34	1.87
5064391--5064500	56	2.0	55	83	7	141	41	13	10	34	1.78
5067513--5067538	2	13.0	2	100	0	52	50	0	0	50	1.00
5068384--5068417	2	17.0	2	87	0	50	50	5	0	44	1.26
5071217--5071691	43	11.3	43	72	11	209	39	13	16	31	1.87
5071346--5071691	166	2.1	166	80	5	394	40	13	15	31	1.85
5071387--5071691	124	2.5	120	77	8	292	39	12	15	32	1.84
5078856--5078949	48	2.0	48	97	0	179	39	10	21	28	1.87
5108090--5108127	13	2.9	14	84	11	53	55	0	13	31	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5114550--5114584	18	1.9	18	88	0	52	0	28	8	62	1.24
5126312--5126337	2	13.0	2	100	0	52	0	50	0	50	1.00
5131403--5131570	26	6.1	27	68	19	89	54	1	2	40	1.26
5131495--5131527	8	4.1	8	88	11	50	84	0	0	15	0.61
5131494--5131527	15	2.2	16	94	5	61	82	0	0	17	0.67
5131405--5131632	113	2.0	113	88	5	336	56	1	2	39	1.22
5135922--5136044	20	6.0	20	63	21	58	48	2	2	45	1.28
5136075--5136134	26	2.3	25	77	8	66	60	1	0	38	1.07
5135922--5136131	19	10.6	20	65	20	68	53	2	1	41	1.22
5136021--5136402	156	2.4	156	86	4	511	54	2	2	40	1.26
5138370--5138398	3	9.7	3	100	0	58	31	0	0	68	0.89
5141133--5141173	17	2.4	17	100	0	82	19	17	12	51	1.76
5143030--5143207	88	2.0	88	90	2	277	28	15	13	43	1.84
5143845--5143878	18	1.9	18	88	5	52	41	8	14	35	1.77
5154307--5154348	21	2.0	21	86	4	59	50	9	9	30	1.67
5160625--5160657	17	1.9	17	93	0	57	36	24	30	9	1.86
5178788--5178835	25	1.9	24	86	4	60	22	6	4	66	1.32
5204669--5204831	77	2.1	76	85	6	213	39	14	9	36	1.79
5206459--5206518	25	2.4	25	83	8	70	25	6	1	66	1.25
5208972--5209062	43	2.1	43	91	2	148	24	16	36	23	1.94
5209451--5209496	22	2.1	22	88	4	67	21	28	21	28	1.99
5210639--5211798	62	18.8	62	80	5	1190	28	18	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5210639--5211798	185	6.3	185	83	2	1298	28	18	18	34	1.94
5210924--5211713	31	25.6	30	64	16	185	28	18	18	34	1.94
5210639--5211773	431	2.6	429	86	2	1551	28	18	18	34	1.95
5223065--5223129	25	2.6	25	80	9	71	26	6	1	66	1.24
5223934--5223979	24	1.9	24	86	8	67	10	2	19	67	1.31
5224369--5224421	13	4.0	13	80	2	52	28	0	3	67	1.07
5228724--5229278	278	2.0	277	99	0	1092	35	15	11	36	1.84
5229252--5229668	218	1.9	218	96	0	771	34	15	11	37	1.85
5231121--5231276	77	2.0	77	86	0	213	39	17	8	33	1.80
5232606--5232866	144	1.8	144	82	7	341	38	11	18	31	1.87
5234084--5234119	18	2.0	18	88	0	54	25	33	2	38	1.70
5244654--5244721	28	2.3	29	76	18	70	57	10	1	30	1.41
5246809--5246854	15	2.8	16	78	21	51	54	2	0	43	1.12
5246836--5246925	40	2.2	41	81	11	98	43	2	2	52	1.26
5247239--5247301	19	3.2	19	77	18	74	42	0	0	57	0.99
5247226--5247299	16	5.2	14	74	19	55	43	0	2	54	1.14
5247269--5247299	16	1.9	16	100	0	62	48	0	0	51	1.00
5247224--5247301	22	3.8	20	75	16	70	42	0	2	55	1.13
5257789--5257814	11	2.4	11	100	0	52	53	0	0	46	1.00
5260998--5261038	15	2.9	15	89	7	59	0	31	0	68	0.90
5260994--5261046	7	7.6	7	83	10	56	0	30	1	67	1.01
5369891--5369917	13	2.1	13	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5381893--5381926	15	2.2	16	89	5	52	88	0	8	2	0.62
5384107--5384208	29	3.5	29	71	14	84	35	12	5	46	1.66
5387398--5387427	16	1.9	15	93	6	51	36	0	0	63	0.95
5387876--5387940	23	2.7	23	80	7	76	35	1	4	58	1.28
5396406--5396462	24	2.4	24	100	0	114	45	7	26	21	1.77
5398071--5398389	150	2.1	150	92	1	534	44	10	27	17	1.80
5408331--5408368	20	1.9	20	100	0	76	44	21	5	28	1.73
5415365--5415403	20	2.0	19	85	5	51	17	7	2	71	1.21
5417693--5417735	21	2.0	22	90	4	70	69	0	9	20	1.15
5417935--5417986	14	3.9	14	82	5	63	69	0	5	25	1.10
5418241--5418273	15	2.1	16	88	5	50	69	0	3	27	1.03
5425617--5425719	9	10.2	11	90	5	91	92	1	5	0	0.46
5425683--5425716	12	2.8	12	90	0	50	82	2	14	0	0.79
5425614--5425703	1	90.0	1	94	0	153	96	1	2	0	0.24
5427016--5427627	142	4.3	142	89	2	926	25	21	16	36	1.94
5427642--5427761	21	5.7	21	83	5	143	28	23	17	30	1.97
5427642--5427761	43	2.8	42	80	7	143	28	23	17	30	1.97
5427641--5427761	64	1.9	64	85	0	170	28	23	17	31	1.97
5427828--5428201	142	2.6	141	90	2	588	27	23	15	34	1.94
5428179--5428324	38	3.9	38	84	2	188	22	13	19	45	1.84
5428335--5428382	8	5.7	9	79	16	50	87	12	0	0	0.54
5428339--5428384	13	3.8	13	80	11	53	86	13	0	0	0.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5428335--5428385	18	2.9	17	88	11	77	88	11	0	0	0.52
5428993--5429287	106	2.8	106	83	3	369	28	22	32	15	1.95
5430067--5430099	17	1.9	17	88	11	50	72	3	3	21	1.11
5430365--5430413	25	2.0	25	87	0	71	71	0	2	26	0.97
5432123--5432161	8	4.9	8	90	9	62	87	0	0	12	0.55
5438379--5438439	31	2.0	31	86	0	86	40	1	31	26	1.66
5440244--5440441	31	6.4	31	94	0	306	26	14	18	41	1.88
5444246--5444818	118	4.9	118	81	4	590	21	18	28	31	1.97
5444262--5444818	229	2.4	230	84	4	703	21	18	28	31	1.97
5444651--5444723	31	2.4	31	77	9	76	21	10	34	32	1.89
5446775--5447035	145	1.8	145	85	3	373	27	18	22	30	1.97
5448445--5448709	31	8.5	31	91	0	370	38	20	16	25	1.93
5449382--5449516	47	2.8	48	82	1	173	24	28	20	26	1.99
5449486--5449587	24	4.3	24	73	9	84	26	33	15	24	1.95
5449511--5449588	24	3.3	24	74	3	86	28	33	12	25	1.93
5457381--5457411	7	4.4	7	100	0	62	12	0	25	61	1.32
5459305--5459351	19	2.5	19	82	6	51	59	4	4	31	1.36
5464058--5464094	19	1.9	19	88	0	56	48	2	18	29	1.62
5473822--5473869	2	25.0	2	87	8	73	54	0	45	0	0.99
5475718--5475824	35	3.1	35	68	17	107	32	26	11	29	1.91
5475712--5475847	67	2.0	67	91	0	218	35	27	13	24	1.92
5476213--5476416	74	2.8	73	76	4	212	24	17	16	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5490572--5490607	17	2.1	17	94	0	63	38	22	36	2	1.69
5490980--5491134	73	2.1	73	84	0	193	42	17	17	22	1.89
5491624--5491689	34	1.9	34	87	3	96	22	13	31	31	1.93
5504541--5504586	23	2.0	23	87	4	67	36	4	17	41	1.69
5524773--5524812	21	2.0	19	90	9	62	50	22	7	20	1.73
5527409--5527458	25	2.0	26	96	4	93	58	0	0	42	0.98
5531996--5532089	49	1.9	48	91	2	152	43	19	10	26	1.83
5561921--5561952	12	2.7	12	95	0	55	0	34	0	65	0.93
5563033--5563084	19	2.7	19	93	0	95	38	3	1	55	1.29
5574149--5574190	22	1.9	22	85	0	57	54	4	19	21	1.62

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