genome.fa.s6.2.7.7.80.10.50.1000.12.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  12  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)
3883658--3883713	27	2.2	25	83	6	67	73	0	0	26	0.84
3883663--3883750	32	2.7	30	80	15	86	68	0	1	30	0.97
3883969--3884016	15	3.1	15	93	3	78	43	8	0	47	1.33
3883973--3884021	15	3.3	15	88	5	55	44	6	0	48	1.27
3893561--3893594	8	4.4	8	85	7	52	85	0	2	11	0.71
3893561--3893593	15	2.2	15	94	0	57	84	0	3	12	0.72
3893629--3893670	11	3.8	11	75	12	50	47	0	0	52	1.00
3893618--3893755	22	6.6	22	68	20	66	42	0	1	55	1.08
3893659--3893742	18	4.4	18	68	16	62	44	0	2	53	1.13
3893650--3893761	58	1.9	57	87	10	165	41	0	1	56	1.10
3893646--3893777	58	2.3	57	82	10	162	45	0	1	53	1.09
3894626--3894664	19	2.0	20	90	5	62	23	0	5	71	1.05
3896209--3896345	41	3.3	41	77	9	136	36	16	8	38	1.79
3897694--3897735	15	2.8	15	88	0	66	57	14	2	26	1.50
3906716--3906768	28	1.9	27	88	3	79	30	15	22	32	1.94
3906716--3906775	28	2.1	28	84	6	77	30	16	23	30	1.96
3914327--3914372	20	2.3	20	92	0	74	43	23	4	28	1.73
3914888--3914921	3	12.0	3	87	12	54	29	0	0	70	0.87
3914888--3914921	8	4.0	9	85	14	54	29	0	0	70	0.87
3914889--3914922	11	3.1	11	100	0	68	26	0	0	73	0.83
3914888--3914921	14	2.4	14	90	9	52	29	0	0	70	0.87
3916594--3916632	10	3.8	10	80	6	51	25	2	20	51	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3919326--3919391	33	2.0	33	84	0	87	31	13	16	37	1.88
3920287--3920411	62	2.0	62	95	0	223	28	13	18	40	1.88
3924034--3924708	335	2.0	343	83	7	860	41	6	6	45	1.56
3946875--3946918	22	2.0	22	86	0	61	43	18	6	31	1.76
3949462--3949505	20	2.2	20	95	0	79	47	20	4	27	1.69
3951512--3951567	27	2.0	27	86	3	76	39	10	17	32	1.84
3951901--3951938	19	2.0	19	94	0	67	28	0	28	42	1.56
3956777--3956801	13	1.9	13	100	0	50	44	0	8	48	1.32
3958115--3958176	27	2.3	27	88	2	90	51	0	3	45	1.17
3967731--3967755	13	1.9	13	100	0	50	48	0	0	52	1.00
3969840--3969868	13	2.2	13	100	0	58	17	27	6	48	1.72
3974725--3974757	18	1.9	18	88	11	52	15	0	18	66	1.25
3975691--3975771	32	2.6	32	86	9	105	25	29	12	32	1.92
3987124--3987148	13	1.9	13	100	0	50	48	8	0	44	1.32
3990080--3990125	19	2.4	20	82	10	60	54	0	2	43	1.12
3990528--3990565	20	1.9	20	100	0	76	28	5	21	44	1.73
4000835--4000872	19	2.0	19	89	0	58	44	26	0	28	1.54
4005107--4005144	19	2.0	19	89	0	58	39	31	0	28	1.57
4008817--4008885	31	2.2	31	82	12	88	30	1	5	62	1.27
4008811--4008889	32	2.5	30	78	13	79	30	2	6	60	1.35
4010331--4010441	57	1.9	58	88	1	170	28	13	30	27	1.94
4010414--4010484	23	3.1	23	85	0	70	26	11	35	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4010422--4010672	23	11.0	23	69	12	113	32	11	31	24	1.90
4010596--4010662	21	3.1	21	77	12	64	34	13	29	22	1.92
4010693--4010820	23	5.6	23	83	5	116	32	12	31	24	1.92
4010693--4010821	46	2.8	46	80	6	145	31	13	31	24	1.93
4010718--4010821	23	4.5	23	87	2	129	31	13	30	24	1.93
4010574--4010804	125	1.8	125	81	11	285	32	13	30	23	1.93
4010740--4010837	23	4.3	23	84	5	69	31	15	28	24	1.95
4010794--4010843	23	2.2	23	81	0	55	36	20	24	20	1.95
4011701--4011776	31	2.5	31	84	0	98	28	15	18	36	1.92
4013230--4013768	151	3.6	151	82	1	607	33	18	15	31	1.93
4014216--4014396	80	2.2	81	80	9	210	27	17	31	23	1.97
4014254--4014443	80	2.4	80	81	6	215	26	17	30	25	1.98
4014228--4014500	81	3.4	80	77	5	228	28	17	30	24	1.97
4017207--4017268	26	2.4	26	83	5	72	29	22	16	32	1.95
4021322--4021515	97	2.0	97	98	0	379	32	14	22	29	1.94
4031352--4031437	30	2.8	32	82	8	90	31	23	11	33	1.90
4035659--4035683	13	1.9	13	100	0	50	48	0	0	52	1.00
4036835--4036899	30	2.2	30	86	5	89	46	18	6	29	1.73
4042712--4042746	7	5.0	7	85	0	52	17	28	11	42	1.83
4043681--4043712	2	16.0	2	100	0	64	50	0	0	50	1.00
4054470--4054525	29	1.9	29	85	0	76	37	16	3	42	1.65
4055505--4055631	29	4.4	29	81	4	114	19	29	7	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4058341--4058399	28	2.1	29	83	3	75	44	18	3	33	1.67
4058566--4058602	19	1.9	19	88	0	56	43	24	2	29	1.68
4060174--4060214	21	1.9	22	85	14	59	65	7	0	26	1.18
4060494--4060549	22	2.6	22	91	5	89	33	14	16	35	1.88
4060599--4060637	20	2.0	20	94	0	69	48	7	12	30	1.69
4065206--4065246	13	3.2	13	86	6	57	63	7	0	29	1.21
4079084--4079127	17	2.6	18	85	10	65	34	20	31	13	1.92
4079616--4079654	20	2.0	20	89	0	60	43	12	17	25	1.85
4083475--4083504	15	2.0	15	93	0	51	3	13	13	70	1.30
4086061--4086196	49	2.8	48	75	3	137	15	7	37	39	1.75
4086753--4086836	22	3.9	22	71	10	57	2	21	3	72	1.11
4094929--4094958	15	2.0	15	93	0	51	3	13	13	70	1.30
4096820--4096857	19	2.0	19	94	0	67	28	0	28	42	1.56
4097689--4098165	237	2.0	238	97	0	893	31	11	20	36	1.88
4100424--4100525	49	2.1	49	81	1	116	17	3	36	42	1.68
4101102--4101137	18	1.9	18	88	5	54	0	16	2	80	0.83
4101074--4101139	26	2.7	23	76	19	62	0	18	1	80	0.79
4101293--4101336	9	4.8	9	80	5	52	79	0	18	2	0.83
4101293--4101336	18	2.4	19	92	3	72	79	0	18	2	0.83
4101293--4101327	17	2.0	18	88	5	54	80	0	20	0	0.72
4105437--4105464	2	14.0	2	100	0	56	50	0	0	50	1.00
4114522--4114604	27	3.1	25	80	13	78	28	19	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4125532--4125629	44	2.2	44	92	1	160	47	25	9	17	1.77
4131818--4131851	2	17.0	2	100	0	68	50	0	0	50	1.00
4132617--4132724	51	2.1	51	98	0	207	30	20	15	33	1.94
4132767--4132816	18	2.8	19	87	6	61	28	12	18	42	1.85
4132916--4132965	25	1.9	26	84	8	66	42	0	2	56	1.11
4132926--4132977	25	2.1	25	82	13	63	34	0	5	59	1.21
4133064--4133116	18	2.9	18	94	0	88	32	11	16	39	1.85
4133071--4133116	9	5.1	9	86	0	65	30	10	19	39	1.86
4141241--4141349	58	1.9	57	86	1	155	34	9	19	36	1.83
4147249--4147290	2	21.0	2	100	0	84	50	50	0	0	1.00
4154033--4154088	21	2.7	22	83	10	73	48	10	17	23	1.79
4154342--4154380	20	2.0	19	90	5	60	51	10	10	28	1.68
4154347--4154432	21	4.1	21	75	12	70	52	15	5	26	1.65
4154540--4154581	21	2.0	22	90	4	68	54	23	0	21	1.44
4158394--4158434	21	1.9	22	95	5	75	46	9	17	26	1.79
4158312--4158501	71	2.7	70	80	4	193	38	12	20	28	1.89
4165518--4165611	47	2.0	47	91	0	152	32	25	11	29	1.91
4171267--4172153	450	2.0	450	99	0	1747	35	17	15	32	1.91
4181949--4181988	2	20.5	2	94	5	73	50	0	0	50	1.00
4183146--4183228	29	2.9	29	84	8	107	34	15	14	34	1.88
4183986--4184031	22	2.0	24	83	8	60	19	28	2	50	1.60
4184155--4184196	20	2.0	23	86	13	63	71	0	9	19	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4184471--4184565	20	4.9	20	72	20	69	69	1	0	29	0.95
4184471--4184560	15	6.0	15	69	20	55	68	1	0	30	0.96
4184473--4184568	9	10.2	10	68	24	50	69	1	0	29	0.95
4184471--4184568	28	3.4	27	74	16	90	69	1	0	29	0.95
4185559--4185604	23	2.0	23	82	0	56	69	2	4	23	1.17
4185877--4185916	13	3.1	13	85	7	55	60	0	7	32	1.25
4201837--4201923	35	2.5	35	88	3	122	35	17	11	35	1.86
4202787--4202836	21	2.3	22	82	6	66	24	8	20	48	1.76
4203056--4203179	59	2.1	60	84	1	160	41	18	7	32	1.78
4203683--4203722	2	20.0	2	94	0	71	50	2	0	47	1.14

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