genome.fa.s5.2.7.7.80.10.50.1000.12.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  12  of  85  ( 10117 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)
3829083--3829309	106	2.2	106	87	4	316	30	14	14	40	1.86
3829087--3829309	105	2.1	106	87	1	322	30	13	15	40	1.86
3829302--3829333	16	2.0	16	93	0	55	0	12	3	84	0.74
3841195--3841310	42	2.8	42	89	3	175	34	2	0	62	1.09
3841285--3841348	11	6.1	10	77	13	58	45	1	0	53	1.10
3841226--3841348	52	2.4	53	86	6	171	38	1	0	60	1.07
3841195--3841346	42	3.7	40	84	9	164	36	2	0	60	1.11
3842343--3842423	32	2.5	31	79	18	76	62	4	2	29	1.29
3849639--3849725	22	4.0	21	77	12	95	75	5	9	9	1.17
3851608--3851730	40	3.0	40	66	15	99	28	19	26	26	1.99
3851430--3851944	81	6.1	84	87	5	618	29	20	24	25	1.99
3851458--3852004	81	6.4	87	85	7	375	28	21	25	25	1.99
3852007--3852198	44	4.4	43	72	9	133	29	17	21	31	1.96
3852004--3852296	129	2.3	129	85	4	385	29	18	21	29	1.97
3867185--3867265	16	4.8	17	79	14	73	48	3	0	48	1.19
3867204--3867269	18	4.0	15	73	22	53	51	1	0	46	1.10
3867495--3867545	23	2.2	23	92	0	84	25	11	17	45	1.83
3890837--3890889	26	2.0	26	100	0	106	26	26	20	26	1.99
3892681--3892780	29	3.6	29	71	18	77	54	0	2	44	1.11
3895301--3895356	28	2.0	28	82	6	69	23	14	7	55	1.63
3896777--3896844	31	2.2	31	89	0	100	42	10	11	35	1.76
3900796--3900820	1	25.0	1	100	0	50	0	0	100	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3910603--3910908	149	2.1	149	98	0	594	31	14	16	37	1.88
3911387--3911414	3	9.3	3	100	0	56	35	0	0	64	0.94
3919403--3919463	31	2.0	31	83	0	77	47	9	11	31	1.72
3922091--3922128	19	2.1	19	90	5	60	23	10	10	55	1.65
3923423--3923455	11	3.0	11	91	8	50	30	0	0	69	0.88
3923528--3923586	30	2.0	30	89	0	91	59	15	1	23	1.45
3931493--3931525	17	1.9	17	88	11	50	57	3	0	39	1.14
3937461--3937500	16	2.5	16	91	0	62	47	2	7	42	1.45
3937573--3937606	9	3.8	9	96	0	59	35	0	5	58	1.22
3937600--3937649	24	2.1	25	85	10	70	60	2	0	38	1.09
3937610--3937653	23	1.9	23	90	9	72	63	0	0	36	0.95
3940737--3940879	57	2.4	59	82	9	166	31	22	25	20	1.98
3940834--3941166	185	1.8	185	93	2	580	28	18	24	28	1.98
3942470--3942550	26	3.3	23	81	11	83	20	24	19	34	1.96
3942506--3942551	25	1.9	25	86	8	69	19	26	21	32	1.97
3942470--3942563	49	1.9	49	80	8	111	23	23	19	34	1.97
3947529--3947553	2	12.5	2	100	0	50	52	0	0	48	1.00
3960981--3961366	151	2.6	149	86	5	523	41	9	20	28	1.84
3964177--3964243	34	2.0	34	96	0	125	29	14	25	29	1.95
3968624--3968663	21	1.9	21	85	10	55	62	7	0	30	1.23
3973013--3973192	51	3.5	51	78	5	152	25	16	26	31	1.96
3973114--3973194	26	3.2	26	62	28	64	23	14	28	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3973012--3973201	102	1.9	101	85	3	265	25	16	26	30	1.97
3976395--3976438	8	5.5	8	84	10	54	38	2	0	59	1.10
3983380--3983404	13	1.9	13	100	0	50	44	0	8	48	1.32
3984413--3984477	33	2.0	33	90	6	105	63	18	1	16	1.40
3991428--3991479	25	2.1	24	96	3	95	48	0	0	51	1.00
3992369--3992454	42	2.0	42	95	0	154	25	16	24	33	1.95
3999556--3999607	24	2.2	24	89	0	77	36	3	9	50	1.54
4000551--4000600	26	1.9	26	95	0	91	44	16	14	26	1.85
4003995--4004046	24	2.2	24	89	0	77	36	3	9	50	1.54
4031002--4031050	17	2.8	18	84	6	73	40	0	0	59	0.98
4031033--4031112	11	6.9	11	70	19	56	42	1	0	56	1.07
4031003--4031108	38	2.9	38	85	4	128	40	0	0	58	1.04
4033839--4033930	19	4.8	19	91	0	148	38	14	8	39	1.77
4033816--4033930	38	2.9	38	84	5	140	39	14	7	38	1.76
4039256--4039297	20	2.1	20	86	0	57	47	0	7	45	1.30
4039692--4039735	19	2.3	19	88	0	61	6	20	29	43	1.78
4043418--4043452	6	5.8	6	100	0	70	31	0	51	17	1.45
4049529--4049671	72	2.0	72	88	1	216	35	19	17	27	1.94
4050266--4050327	26	2.3	26	81	8	72	58	0	6	35	1.24
4050435--4050481	8	5.3	9	87	7	53	59	0	2	38	1.09
4050431--4050485	17	3.2	18	82	12	62	60	0	1	38	1.08
4059137--4059171	17	2.1	16	89	5	52	25	2	2	68	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4060097--4060135	11	3.4	11	80	13	51	51	0	2	46	1.14
4061556--4061599	23	2.0	22	86	4	61	50	34	2	13	1.55
4061901--4061955	15	3.2	16	82	14	58	12	7	1	78	1.04
4061901--4061949	17	2.8	17	87	9	64	12	6	2	79	0.99
4061915--4061958	17	2.9	14	86	13	52	9	9	0	81	0.87
4067645--4067732	44	2.0	44	90	0	140	21	9	27	42	1.83
4074865--4074929	27	2.4	27	75	10	69	6	21	1	70	1.17
4082269--4082305	17	2.1	18	90	5	58	72	0	18	8	1.08
4083332--4083377	17	2.9	15	87	9	56	65	0	0	34	0.93
4084400--4084463	25	2.5	26	94	5	121	25	0	9	65	1.22
4085741--4085773	16	2.1	15	94	5	57	72	3	0	24	0.98
4085739--4085788	21	2.3	20	83	10	55	70	6	2	22	1.20
4085957--4086073	4	29.2	4	72	14	64	70	2	3	23	1.14
4085953--4086067	22	5.3	21	67	11	70	71	2	3	22	1.14
4086004--4086037	13	2.6	13	95	0	59	85	5	2	5	0.83
4087622--4087957	130	2.5	130	81	6	361	28	20	18	32	1.96
4087710--4088196	181	2.7	181	90	1	762	29	21	17	31	1.96
4087622--4088182	44	12.6	44	70	12	304	29	21	18	31	1.96
4090836--4090949	43	2.7	43	78	8	124	27	28	21	22	1.99
4091829--4091857	11	2.5	12	88	11	51	41	6	0	51	1.28
4092729--4092800	19	3.8	19	81	15	78	5	18	1	75	1.07
4092742--4092789	13	3.6	14	81	18	66	4	16	0	79	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4092734--4092776	20	2.2	19	84	16	52	4	18	0	76	0.95
4092731--4092803	34	2.2	33	83	9	87	5	17	1	75	1.07
4092728--4092791	13	5.0	12	75	17	58	4	18	0	76	0.95
4092728--4092811	27	3.2	24	79	18	80	7	15	1	76	1.06
4092746--4092810	34	1.9	34	84	6	87	7	13	1	76	1.06
4097808--4097840	16	2.1	15	94	5	57	72	3	0	24	0.98
4097806--4097859	21	2.6	21	82	11	58	68	5	1	24	1.21
4098110--4098144	18	1.9	18	94	0	61	60	0	2	37	1.12
4098672--4098697	12	2.2	12	100	0	52	7	34	46	11	1.69
4100268--4100555	151	1.9	151	89	1	452	24	17	29	27	1.97
4106297--4106415	45	2.8	42	83	7	157	31	22	20	26	1.98
4106867--4106939	21	3.3	21	72	10	65	5	39	20	34	1.76
4106905--4106959	21	2.6	21	88	0	74	5	40	20	34	1.75
4109200--4110283	365	3.0	366	93	0	1828	33	20	15	30	1.94
4110330--4110410	24	3.2	23	77	19	90	45	9	0	44	1.37
4110330--4110414	28	3.2	26	76	12	84	44	9	0	45	1.36
4110917--4110946	15	2.0	15	100	0	60	40	40	0	20	1.52
4110918--4110946	8	3.8	8	90	9	51	37	41	0	20	1.53
4110957--4110996	7	6.0	7	85	11	57	30	52	0	17	1.45
4110957--4110995	12	3.1	12	82	13	51	30	51	0	17	1.46
4110988--4111062	14	5.1	14	75	10	60	38	32	1	28	1.65
4111111--4111154	21	2.1	21	87	4	63	45	25	0	29	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4111550--4112013	115	4.0	115	88	1	653	29	23	21	25	1.99
4111926--4112068	73	2.0	73	95	0	259	27	21	23	27	1.99
4111811--4112182	188	2.0	187	87	2	541	26	23	23	26	2.00
4111926--4112085	73	2.2	73	91	0	257	28	22	22	26	1.99
4111988--4112316	114	2.9	111	84	5	408	27	26	22	24	2.00
4111696--4112313	302	2.0	302	85	3	823	27	24	22	24	2.00
4112953--4112981	2	14.5	2	100	0	58	51	0	0	48	1.00
4123026--4123067	21	2.0	22	85	4	59	33	9	23	33	1.87
4123252--4123317	35	1.9	34	90	6	107	43	13	10	31	1.78
4127710--4127738	14	2.1	14	100	0	58	27	44	20	6	1.77

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