genome.fa.s6.2.7.7.80.10.50.1000.11.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  11  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)
3591098--3591122	13	1.9	13	100	0	50	36	8	24	32	1.84
3609502--3609550	2	24.5	2	100	0	98	0	48	0	51	1.00
3609584--3609658	25	3.0	25	81	7	82	56	1	0	42	1.08
3609595--3609661	19	3.6	19	70	29	63	53	1	0	44	1.09
3609565--3609651	42	2.1	41	80	8	95	55	1	0	43	1.07
3609608--3609662	23	2.5	22	84	3	74	52	1	0	45	1.11
3610128--3610211	22	3.5	23	77	11	80	46	2	0	51	1.14
3611144--3611247	48	2.2	48	84	6	131	25	25	10	38	1.88
3611273--3611336	30	2.1	30	88	5	94	14	26	14	45	1.82
3625500--3625534	15	2.3	15	85	0	52	54	0	0	45	0.99
3633837--3633909	3	24.0	3	73	15	53	67	5	27	0	1.13
3633836--3633916	24	3.2	24	80	16	101	65	4	29	0	1.13
3633836--3633909	27	2.9	27	82	13	93	66	5	28	0	1.14
3641919--3641979	30	1.9	33	87	9	92	65	0	0	34	0.93
3642139--3642369	120	1.9	120	86	5	333	29	6	1	61	1.32
3646345--3646385	17	2.4	17	95	0	73	24	2	0	73	0.96
3649396--3649474	2	41.5	2	87	9	121	49	1	0	49	1.09
3649396--3649474	19	4.2	19	89	10	126	49	1	0	49	1.09
3652348--3652391	22	2.0	22	81	0	52	27	11	15	45	1.81
3652593--3652635	22	2.0	22	85	0	59	25	6	32	34	1.83
3652632--3652674	21	2.0	21	90	0	68	18	2	34	44	1.63
3661460--3661525	23	3.0	22	71	4	69	36	31	12	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3661342--3662115	295	2.6	295	86	1	1039	33	23	13	29	1.93
3663471--3663602	27	4.9	27	80	0	138	39	15	11	34	1.83
3664837--3664885	20	2.4	21	86	3	64	26	14	16	42	1.86
3666110--3666162	20	2.7	20	82	5	63	33	11	18	35	1.87
3669070--3669104	17	2.1	17	89	10	54	80	0	11	8	0.92
3669098--3669374	121	2.3	120	83	6	328	63	2	3	30	1.24
3669306--3669345	10	4.3	10	75	18	50	75	0	2	22	0.93
3669285--3669341	17	3.1	17	80	10	60	70	0	3	26	1.03
3669109--3669438	121	2.7	120	78	10	315	62	1	4	30	1.25
3669784--3669810	6	4.5	6	100	0	54	48	0	33	18	1.49
3673113--3673188	27	2.8	27	84	4	91	39	2	14	43	1.59
3679499--3679550	23	2.3	23	100	0	104	25	11	21	42	1.86
3680355--3680437	27	3.1	27	84	3	105	45	3	13	37	1.61
3690691--3690724	3	11.3	3	100	0	68	0	32	0	67	0.91
3691245--3691295	23	2.2	24	80	13	63	11	29	5	52	1.61
3691670--3691741	29	2.6	28	84	6	92	37	12	9	40	1.76
3691693--3691820	29	4.4	30	74	15	124	32	15	13	39	1.86
3691812--3691880	34	2.0	34	85	0	93	34	20	10	34	1.86
3692469--3692506	18	2.0	20	90	10	62	47	0	0	52	1.00
3692474--3692528	18	3.1	18	82	12	53	52	0	1	45	1.11
3696652--3696683	2	16.0	2	93	0	55	53	0	46	0	1.00
3696653--3696687	8	4.4	8	96	0	52	57	0	42	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709669--3709739	32	2.2	32	85	2	90	25	29	16	28	1.97
3709763--3709842	28	2.9	27	81	7	97	31	21	16	31	1.95
3710328--3710427	21	4.8	21	86	3	96	36	15	22	27	1.93
3717815--3717864	21	2.3	21	86	3	64	40	14	16	30	1.87
3717831--3717898	21	3.2	21	85	0	91	33	20	22	23	1.97
3718389--3718444	10	5.4	10	77	8	58	21	3	3	71	1.17
3719502--3719539	15	2.4	16	82	4	51	39	7	0	50	1.32
3719718--3719774	21	3.0	21	70	21	61	43	0	7	49	1.29
3727715--3727757	21	2.0	21	95	0	77	27	16	18	37	1.92
3727717--3727770	21	2.6	21	84	0	72	29	16	16	37	1.91
3727740--3727839	45	2.2	45	77	7	103	33	20	19	28	1.96
3727812--3727887	24	3.2	24	92	0	116	39	21	17	22	1.92
3727947--3728027	29	2.6	31	86	5	103	44	11	8	35	1.71
3730735--3730846	56	2.0	56	92	0	188	31	8	16	43	1.77
3742705--3742777	30	2.4	30	86	4	94	60	5	5	28	1.42
3743273--3743866	198	3.0	196	93	1	1008	39	16	14	29	1.89
3744517--3744559	18	2.4	18	92	0	68	48	11	2	37	1.52
3747108--3747146	19	2.1	19	100	0	78	35	10	33	20	1.86
3750302--3750341	2	20.0	2	100	0	80	50	0	0	50	1.00
3752471--3752512	14	3.1	14	76	13	52	50	16	16	16	1.79
3753103--3753184	39	2.1	39	100	0	164	53	19	12	14	1.72
3757140--3757174	15	2.3	15	90	0	52	45	0	8	45	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3757552--3757584	15	2.3	15	89	5	50	51	18	27	3	1.60
3761946--3761984	20	2.0	20	84	0	51	10	12	2	74	1.17
3767332--3767372	21	1.9	21	85	5	55	17	17	34	31	1.93
3777965--3778036	32	2.3	30	86	9	108	62	4	12	20	1.46
3788935--3788993	31	1.9	31	92	0	100	33	22	10	33	1.87
3806935--3807043	56	2.0	55	87	5	157	43	4	2	49	1.37
3807022--3807072	26	2.0	26	92	7	86	47	1	1	49	1.24
3807247--3807271	13	1.9	13	100	0	50	24	4	0	72	1.02
3808317--3808369	18	2.8	18	83	11	54	47	1	0	50	1.12
3808345--3808438	45	2.1	45	88	4	136	47	0	3	48	1.17
3809591--3809654	27	2.4	27	86	2	85	64	0	1	34	1.03
3809639--3809701	32	2.0	32	81	6	74	49	1	4	44	1.33
3810931--3810984	9	6.0	9	95	0	99	0	35	0	64	0.94
3811189--3811232	12	3.7	12	81	0	52	6	50	4	38	1.50
3814445--3814522	40	2.0	40	81	0	93	32	8	14	44	1.76
3818845--3818915	27	2.6	27	70	4	70	38	11	9	40	1.74
3818915--3818992	40	2.0	40	84	5	104	38	16	12	32	1.87
3818965--3819021	27	2.2	25	79	11	69	36	10	14	38	1.80
3818972--3819042	27	2.7	27	84	2	99	39	11	9	39	1.74
3819026--3819076	25	2.0	25	88	3	75	37	15	11	35	1.84
3820011--3820054	23	1.9	23	85	0	61	43	6	11	38	1.67
3820258--3820316	30	2.0	30	93	0	100	35	5	23	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3820545--3820693	45	3.4	44	82	10	182	44	3	4	46	1.40
3825918--3826001	42	2.0	40	88	11	125	38	0	4	55	1.21
3832422--3832510	44	2.0	44	100	0	178	8	16	20	53	1.69
3835873--3835999	66	1.9	66	91	0	191	27	14	25	31	1.95
3835879--3835993	32	3.5	31	69	10	95	29	16	24	29	1.96
3843448--3843567	58	2.1	57	90	4	188	35	10	17	37	1.83
3852841--3852879	20	2.0	20	89	0	60	38	2	20	38	1.66
3855411--3855558	66	2.3	65	89	1	215	25	14	27	32	1.94
3857036--3857065	16	1.9	15	93	6	51	26	0	3	70	1.03
3858583--3858643	29	2.1	30	90	3	97	45	4	11	37	1.62
3858988--3859057	3	24.0	3	72	18	51	34	0	0	65	0.93
3861027--3861059	2	17.0	2	93	6	59	48	0	0	51	1.00
3861028--3861057	15	2.0	15	100	0	60	46	0	0	53	1.00
3861027--3861060	17	2.0	17	100	0	68	47	0	0	52	1.00
3862064--3862111	15	3.1	15	90	6	60	54	0	6	39	1.26
3862076--3862111	15	2.4	15	100	0	72	52	0	5	41	1.24
3862490--3862518	14	2.1	14	100	0	58	31	27	0	41	1.56
3863481--3863525	22	2.0	22	83	8	56	44	0	0	55	0.99
3866559--3866596	19	2.0	19	100	0	76	26	0	31	42	1.56
3867333--3867389	20	2.8	20	100	0	114	40	14	14	31	1.85
3871325--3871452	60	2.1	60	83	0	166	32	23	21	21	1.98
3871542--3871587	21	2.2	21	100	0	92	26	23	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3871542--3871598	21	2.7	21	91	0	69	28	24	21	26	1.99
3871847--3871950	41	2.5	41	83	9	113	21	34	16	27	1.94
3875598--3875649	12	4.4	12	83	9	54	82	0	11	5	0.82
3875607--3875637	15	2.1	15	93	0	53	87	0	9	3	0.66
3875607--3875649	19	2.3	19	84	8	52	83	0	13	2	0.74
3878123--3878176	22	2.4	22	84	9	65	38	3	0	57	1.17
3882153--3882208	18	3.0	18	80	10	67	73	0	0	26	0.84
3882160--3882342	26	7.0	26	69	19	105	68	0	2	28	1.07
3882160--3882201	13	3.2	13	86	3	57	78	0	0	21	0.75
3882245--3882329	32	2.6	33	81	7	93	68	0	1	30	0.97

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