genome.fa.s6.2.7.7.80.10.50.1000.17.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  17  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)
5822607--5822648	21	2.0	20	86	4	57	69	0	2	28	1.01
5823983--5824011	14	2.0	15	93	6	51	27	13	24	34	1.93
5824516--5824540	13	1.9	13	100	0	50	44	24	8	24	1.80
5826917--5826980	25	2.6	25	78	14	69	37	3	3	56	1.31
5828428--5828524	47	2.0	48	90	2	151	32	1	12	53	1.45
5828428--5828502	20	3.1	26	67	27	65	34	0	13	52	1.41
5842239--5842325	43	2.0	43	95	0	156	33	17	18	31	1.94
5843276--5843307	2	16.0	2	100	0	64	50	0	0	50	1.00
5849797--5849874	28	2.7	29	79	15	90	33	1	0	65	1.01
5849797--5849885	29	3.1	28	75	16	94	31	2	0	66	1.04
5849807--5849885	20	4.1	19	68	22	58	27	2	0	69	1.01
5857385--5857411	14	1.9	14	100	0	54	29	0	11	59	1.32
5861892--5861916	13	1.9	13	100	0	50	48	8	0	44	1.32
5865886--5865968	18	5.3	15	77	11	62	24	3	1	71	1.09
5865930--5865967	3	12.7	3	94	0	67	31	0	2	65	1.06
5868304--5868365	22	2.9	22	81	13	60	17	3	12	66	1.38
5870787--5870813	14	1.9	14	100	0	54	29	0	11	59	1.32
5895348--5895452	52	2.0	51	94	1	183	35	17	3	42	1.67
5903372--5903477	40	2.7	38	76	5	106	24	15	36	23	1.93
5903828--5903924	39	2.5	39	81	6	99	24	21	21	31	1.98
5904117--5904159	22	2.0	22	90	0	68	27	23	18	30	1.98
5929146--5929296	31	4.9	31	79	7	148	25	20	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5929162--5929299	61	2.3	61	81	5	154	25	20	15	38	1.92
5929672--5929859	73	2.6	71	83	5	232	22	19	14	43	1.87
5929679--5929909	73	3.2	72	80	4	185	22	18	14	44	1.86
5933512--5933819	116	2.7	113	78	11	304	41	12	1	43	1.53
5939841--5939897	12	4.9	12	79	12	66	24	21	14	40	1.90
5939830--5939894	34	1.9	34	100	0	130	23	23	13	40	1.90
5954869--5954913	22	2.0	22	95	0	81	46	33	8	11	1.70
5959810--5959859	19	2.6	19	75	12	57	12	36	8	44	1.71
5960648--5960854	42	4.9	41	77	7	200	25	19	33	20	1.97
5960650--5960839	84	2.3	85	81	7	226	25	20	34	20	1.96
5962130--5962196	22	3.0	22	82	6	73	50	28	7	13	1.68
5962577--5962648	22	3.3	22	86	0	99	37	25	5	31	1.79
5963445--5963493	21	2.3	21	85	3	71	36	30	14	18	1.90
5967516--5967694	29	6.3	29	77	15	155	31	14	15	37	1.88
5967615--5967661	24	1.9	24	91	4	76	23	10	19	46	1.80
5967680--5967768	45	2.0	45	88	0	133	25	17	21	34	1.96
5967700--5967912	69	3.1	69	82	4	261	24	17	19	38	1.93
5967745--5967871	24	5.4	24	67	9	82	22	15	18	43	1.88
5967853--5968044	45	4.3	45	86	4	262	29	18	16	35	1.93
5983622--5983686	33	2.0	33	96	0	121	18	12	12	56	1.66
5984231--5984260	2	15.0	2	100	0	60	50	0	0	50	1.00
5986749--5986931	42	4.4	42	90	0	294	21	22	31	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5986902--5986974	30	2.4	30	88	0	110	20	27	24	27	1.99
5986981--5987042	26	2.4	26	91	0	97	20	3	41	33	1.69
5990564--5990831	42	6.4	42	91	1	421	21	23	33	21	1.97
5990851--5990912	26	2.4	26	94	0	106	22	4	41	30	1.74
5997660--5997714	29	1.9	28	85	3	74	47	18	10	23	1.80
6015934--6015964	2	15.5	2	93	0	53	0	0	51	48	1.00
6015971--6015995	2	12.5	2	100	0	50	52	48	0	0	1.00
6015995--6016026	2	16.0	2	93	0	55	46	0	3	50	1.17
6016983--6017037	20	2.8	20	78	10	69	47	1	5	45	1.36
6022013--6022072	30	2.0	30	93	0	102	50	10	10	30	1.69
6026381--6026552	73	2.4	73	86	0	218	38	14	19	27	1.91
6030509--6030547	14	2.9	14	85	11	55	28	0	5	66	1.12
6031448--6031549	38	2.7	38	82	0	141	24	35	13	26	1.93
6031923--6031979	22	2.6	21	78	8	60	19	10	28	42	1.84
6032788--6032844	22	2.6	22	82	0	78	29	5	21	43	1.74
6033214--6033261	22	2.2	23	77	11	55	16	16	16	50	1.79
6037178--6037230	22	2.4	22	83	0	61	35	20	18	24	1.95
6039520--6039693	23	7.6	23	77	2	143	35	24	11	29	1.90
6039520--6039693	46	3.8	46	78	3	170	35	24	11	29	1.90
6039532--6039678	69	2.1	69	82	2	170	36	23	10	29	1.88
6040016--6040066	26	2.0	25	88	3	75	56	3	5	33	1.42
6041951--6042056	38	2.7	40	83	2	135	24	41	13	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6041954--6042052	19	5.1	19	67	9	56	23	41	14	21	1.89
6042380--6042408	2	15.0	2	92	7	51	51	48	0	0	1.00
6044758--6044808	21	2.4	21	83	6	68	21	21	19	37	1.95
6047347--6047396	19	2.6	19	93	0	82	40	36	2	22	1.65
6047347--6047402	19	2.8	19	89	5	67	39	33	3	23	1.72
6052875--6053301	229	1.9	228	84	3	570	43	16	9	30	1.79
6057438--6057514	13	5.8	13	76	14	70	74	9	0	16	1.07
6057481--6057525	11	3.9	12	88	11	60	82	0	0	17	0.68
6057481--6057528	5	8.7	6	84	11	59	83	0	0	16	0.65
6057493--6057531	5	7.4	5	91	8	60	82	0	0	17	0.68
6057711--6057766	25	2.2	25	81	9	60	51	30	7	10	1.63
6058623--6058655	10	3.5	10	92	8	52	81	0	0	18	0.68
6059084--6059165	7	11.6	7	71	21	55	70	2	2	24	1.11
6059084--6059165	11	8.0	11	69	20	54	70	2	2	24	1.11
6059353--6059411	22	2.7	21	82	10	73	74	0	8	16	1.05
6059355--6059423	15	4.4	16	74	7	54	73	0	7	18	1.05
6059398--6059448	22	2.3	21	83	12	59	72	0	1	25	0.95
6059381--6059459	9	8.7	9	71	25	51	72	1	2	24	1.05
6062883--6062917	17	2.0	18	88	5	54	54	0	5	40	1.24
6063361--6063385	2	12.5	2	100	0	50	48	0	0	52	1.00
6066195--6066226	14	2.3	14	94	0	55	18	0	18	62	1.33
6067885--6068111	80	2.8	80	90	2	350	29	11	24	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6072381--6072410	15	2.1	15	93	6	53	76	6	0	16	0.99
6072644--6072676	17	1.9	17	93	0	57	12	6	0	81	0.85
6073616--6073722	34	3.1	34	69	0	97	28	15	25	29	1.96
6073948--6073985	18	2.1	19	85	14	53	78	15	5	0	0.91
6074121--6074180	24	2.4	25	83	8	70	70	6	13	10	1.34
6075158--6075185	2	14.0	2	100	0	56	50	0	0	50	1.00
6075217--6075246	2	15.0	2	100	0	60	50	0	0	50	1.00
6079539--6079589	18	2.8	18	85	8	59	1	31	0	66	1.03
6079847--6079876	15	1.9	15	93	6	51	0	93	3	3	0.42
6079845--6079878	17	2.0	17	94	0	59	0	91	5	2	0.51
6088329--6088455	43	3.0	42	86	4	164	23	30	17	28	1.97
6089752--6089875	35	3.5	34	77	7	131	46	14	5	33	1.68
6091345--6091539	73	2.6	74	77	9	177	19	20	18	41	1.91
6101102--6101142	21	2.0	21	95	0	73	36	12	9	41	1.76
6101049--6101181	61	2.2	61	82	4	153	38	18	8	35	1.80
6101236--6101277	20	2.2	19	91	4	66	45	21	7	26	1.77
6104864--6104917	26	2.1	26	96	0	99	42	18	12	25	1.86
6106354--6106406	20	2.7	21	80	13	60	9	11	3	75	1.16
6112043--6112083	13	3.0	14	75	17	50	9	2	9	78	1.06
6112042--6112097	27	2.1	27	86	0	76	12	1	8	76	1.08
6115472--6115591	12	10.1	12	83	5	118	42	5	6	45	1.52
6115502--6115591	2	44.5	2	82	2	108	44	3	4	46	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6115472--6115590	59	2.0	58	98	1	229	42	5	6	44	1.52
6130762--6130786	2	12.5	2	100	0	50	52	0	48	0	1.00
6142014--6142051	2	19.0	2	100	0	76	50	0	0	50	1.00
6146717--6146796	35	2.3	35	86	6	108	30	5	6	58	1.44
6148172--6148275	31	3.4	30	78	6	93	53	7	10	27	1.62
6150805--6150868	22	2.8	22	79	13	67	59	4	4	31	1.38
6150805--6150865	23	2.6	24	87	7	90	60	4	4	29	1.38
6152666--6152745	40	2.0	39	100	0	124	45	17	12	25	1.83
6154965--6155018	28	1.9	29	85	7	76	24	14	22	38	1.91
6155379--6155417	20	2.0	20	85	10	53	25	5	20	48	1.70

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