genome.fa.s11.2.7.7.80.10.50.1000.14.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: Chr12
Parameters: 2 7 7 80 10 50 1000
Length:  24583705

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   

This is table  14  of  75  ( 8944 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)
3940116--3940186	31	2.3	31	82	4	90	43	9	4	42	1.57
3944146--3944179	10	3.3	10	87	4	50	70	0	0	29	0.87
3944146--3944193	20	2.4	21	83	13	57	68	0	2	29	1.01
3944746--3944779	11	3.2	11	83	8	52	70	0	0	29	0.87
3948377--3948417	21	2.0	20	85	4	55	53	12	7	26	1.64
3952381--3952420	20	2.0	20	85	9	55	70	0	15	15	1.18
3952694--3952731	19	2.1	19	85	14	53	42	5	10	42	1.62
3954127--3954170	20	2.2	20	84	8	54	52	6	0	40	1.28
3954380--3954696	153	2.1	154	98	1	609	41	6	10	42	1.64
3954429--3954739	153	2.0	151	83	6	385	45	5	8	40	1.59
3960576--3960619	24	1.9	24	90	9	74	36	0	2	61	1.09
3960716--3960743	9	3.1	9	100	0	56	57	10	0	32	1.33
3960686--3960827	68	2.1	66	94	2	248	45	9	4	40	1.58
3960816--3960857	16	2.6	16	88	0	57	45	4	2	47	1.36
3960686--3960849	68	2.5	67	88	8	218	46	8	4	40	1.54
3960831--3960886	23	2.5	22	82	5	76	44	0	1	53	1.11
3962114--3962159	24	1.9	25	91	8	78	50	4	15	30	1.63
3967287--3967363	32	2.4	32	84	2	93	36	14	18	31	1.90
3968492--3968646	77	2.0	77	100	0	310	34	12	10	41	1.78
3968861--3968927	28	2.3	29	82	2	82	37	0	19	43	1.51
3969083--3969390	156	2.0	157	88	3	469	35	14	21	28	1.93
3973347--3973409	29	2.1	29	82	2	72	39	11	11	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3981944--3981983	21	2.0	20	85	5	53	32	10	5	52	1.56
3985447--3985485	20	2.0	20	89	0	60	30	5	12	51	1.62
3986242--3986280	20	2.0	20	89	0	60	30	5	12	51	1.62
3984976--3986565	795	2.0	795	100	0	3180	32	15	16	35	1.91
3986728--3986773	22	2.0	23	87	4	67	30	0	2	67	1.03
3989460--3989485	9	2.9	9	100	0	52	42	0	0	57	0.98
3992308--3992440	41	3.2	42	81	12	168	22	27	21	28	1.99
4006527--4006551	2	12.5	2	100	0	50	52	0	0	48	1.00
4018559--4018629	24	2.8	24	71	14	63	57	0	1	40	1.07
4023295--4023328	17	2.1	17	88	5	52	32	0	8	58	1.29
4026554--4026849	146	2.0	147	98	1	569	51	8	8	32	1.61
4029719--4029754	16	2.2	16	90	0	54	77	0	0	22	0.76
4040695--4040785	37	2.5	37	98	0	173	28	32	19	18	1.96
4040695--4040825	37	3.4	37	88	4	154	31	29	16	22	1.96
4040974--4041019	24	1.9	24	83	16	60	50	17	0	32	1.47
4050274--4050308	18	1.9	18	88	11	54	31	37	14	17	1.89
4050498--4050601	51	2.0	51	96	0	190	37	20	14	27	1.91
4062586--4062629	20	2.2	20	87	0	61	38	0	0	61	0.96
4062696--4063039	176	2.0	176	100	0	688	36	12	20	30	1.90
4063103--4063128	5	5.2	5	100	0	52	61	0	0	38	0.96
4068052--4068085	16	2.1	17	88	5	52	73	2	0	23	0.97
4071869--4071915	19	2.4	20	82	13	62	38	0	6	55	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4077805--4077870	33	2.0	33	85	5	89	13	16	22	46	1.82
4080036--4080067	2	16.0	2	93	0	55	0	53	0	46	1.00
4080409--4080473	29	2.2	31	83	8	82	35	20	6	38	1.77
4080518--4080547	3	10.0	3	100	0	60	33	0	0	66	0.92
4082515--4082567	13	3.5	14	79	20	54	73	0	1	24	0.93
4085478--4085523	24	2.0	22	87	12	65	26	8	0	65	1.21
4086306--4086371	10	6.7	10	75	20	52	69	1	0	28	0.97
4086309--4086363	19	2.8	19	86	8	76	70	1	0	27	0.97
4126630--4126687	20	2.8	20	80	12	73	63	6	6	22	1.43
4129052--4129226	43	4.1	43	82	2	192	30	29	16	24	1.96
4130050--4130117	27	2.6	27	81	9	70	27	14	42	14	1.85
4130144--4130188	14	3.2	14	90	0	72	15	4	40	40	1.67
4130216--4130274	28	2.1	29	83	3	75	33	0	32	33	1.58
4130812--4130836	2	12.5	2	100	0	50	48	0	0	52	1.00
4132046--4132074	14	2.1	14	100	0	58	27	0	27	44	1.54
4132048--4132081	14	2.4	14	90	0	50	26	2	29	41	1.70
4134276--4134306	15	2.1	15	93	0	53	35	0	9	54	1.33
4134444--4134504	22	2.9	21	70	18	54	54	1	1	42	1.20
4140425--4140467	5	8.2	5	94	5	68	39	0	0	60	0.97
4141506--4141693	45	4.2	45	76	9	170	26	19	20	32	1.97
4142666--4142708	19	2.3	18	80	7	50	34	2	6	55	1.39
4148465--4148552	45	2.0	45	88	0	131	45	14	15	23	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4156018--4156045	5	5.6	5	100	0	56	39	0	0	60	0.97
4156296--4156323	5	5.6	5	100	0	56	39	0	0	60	0.97
4155811--4156367	278	2.0	279	99	0	1107	34	8	12	43	1.75
4162016--4162424	219	1.9	219	91	2	678	49	16	14	18	1.80
4166470--4166914	114	3.9	113	77	8	458	27	20	17	33	1.96
4166095--4166914	227	3.7	226	92	4	1401	27	20	17	34	1.95
4166097--4166899	444	1.8	445	96	0	1502	27	20	17	34	1.95
4171055--4171106	23	2.3	23	83	6	70	51	0	1	46	1.12
4171285--4171348	31	2.1	29	82	5	74	29	1	14	54	1.49
4171301--4171348	13	3.4	14	76	18	55	27	0	14	58	1.37
4174561--4174733	43	4.0	43	83	3	195	26	21	17	34	1.96
4178060--4178118	21	2.8	21	81	0	73	1	40	20	37	1.63
4179314--4179338	12	2.1	12	100	0	50	56	16	0	28	1.41
4180795--4180852	22	2.6	22	77	0	71	50	24	3	22	1.65
4181023--4181273	41	6.1	41	86	0	331	29	30	18	20	1.97
4183986--4184020	14	2.6	14	86	4	54	77	0	8	14	0.99
4187312--4187959	131	5.0	130	82	2	697	32	16	12	39	1.86
4189735--4189799	24	2.7	24	78	2	76	35	23	24	16	1.95
4193605--4193745	72	1.9	73	95	1	257	22	28	9	39	1.86
4193732--4193800	4	17.0	4	76	16	63	2	23	1	72	1.06
4193733--4193802	33	2.1	34	89	2	106	2	21	1	74	1.03
4196966--4197016	25	2.0	25	100	0	102	35	15	7	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4215886--4216265	133	2.8	130	77	9	363	33	14	21	30	1.93
4220228--4220280	9	5.8	9	82	4	52	50	15	1	32	1.54
4220205--4220268	18	3.4	18	78	6	65	45	15	4	34	1.67
4220549--4221514	42	23.0	42	98	0	1828	23	25	21	29	1.99
4221709--4221758	26	1.9	26	91	0	82	24	18	10	48	1.78
4225803--4226310	254	2.0	255	91	0	820	39	16	19	24	1.91
4238289--4238323	10	3.4	10	88	7	52	68	0	0	31	0.90
4238310--4238358	20	2.5	20	82	0	53	46	6	4	42	1.47
4239426--4239496	33	2.2	33	80	16	78	43	5	11	39	1.64
4239471--4239551	33	2.5	33	81	2	92	51	8	7	32	1.60
4242027--4242079	26	2.0	26	85	7	72	64	0	0	35	0.94
4242317--4242368	24	2.2	25	80	13	65	40	1	11	46	1.51
4245349--4245404	15	3.8	15	85	4	78	30	16	1	51	1.54
4246381--4246405	8	3.1	8	100	0	50	48	0	0	52	1.00
4248004--4248039	19	1.9	18	88	5	54	36	5	2	55	1.38
4248098--4248149	23	2.2	24	89	3	79	40	9	0	50	1.35
4256614--4257594	88	11.2	88	89	0	1399	29	19	23	27	1.98
4257567--4257652	44	2.0	44	90	4	138	31	18	23	26	1.97
4258069--4258104	18	2.0	18	100	0	72	5	38	11	44	1.63
4261806--4261845	11	3.9	11	78	18	50	70	7	0	22	1.12
4261987--4262051	3	21.3	3	84	3	85	58	1	38	1	1.17
4262268--4262479	76	2.7	77	77	10	225	34	4	11	49	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4266430--4266510	26	3.2	26	65	28	73	22	13	29	34	1.92
4266329--4266510	51	3.6	49	80	6	197	21	15	28	33	1.95
4266512--4266597	45	1.9	45	87	0	127	26	16	23	33	1.95
4270220--4271286	158	6.8	158	94	2	1720	29	10	7	52	1.62
4271148--4271384	130	1.8	131	84	6	329	28	12	8	50	1.69
4271529--4271586	28	2.0	29	83	3	73	56	8	3	31	1.46
4271648--4271784	10	14.2	10	76	10	124	0	29	0	70	0.87
4271649--4271800	76	2.0	77	88	8	231	0	30	0	69	0.89
4279208--4279233	6	4.3	6	100	0	52	30	19	15	34	1.93
4279402--4279460	27	2.2	27	96	0	109	35	30	6	27	1.83

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