genome.fa.s11.2.7.7.80.10.50.1000.16.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  16  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)
4565259--4565413	21	7.3	21	68	5	98	41	17	24	16	1.90
4567887--4567934	10	5.2	9	80	12	53	37	0	0	62	0.95
4567902--4567949	20	2.5	18	80	9	51	41	2	0	56	1.11
4569551--4569620	18	3.9	19	72	18	53	32	2	2	61	1.25
4571006--4571171	81	2.0	82	98	1	325	57	3	9	28	1.47
4572515--4572990	44	10.7	44	76	6	343	29	20	17	33	1.95
4572512--4572685	92	1.9	92	90	0	276	29	21	17	31	1.96
4572517--4572989	89	5.3	89	81	3	431	29	19	17	33	1.95
4572521--4572990	133	3.5	132	80	5	437	29	19	17	33	1.95
4585425--4585462	18	2.2	17	90	4	58	44	0	2	52	1.14
4586697--4586735	6	6.7	6	94	2	53	41	7	0	51	1.31
4586723--4586783	27	2.3	27	86	5	90	55	0	4	39	1.21
4586882--4586923	21	2.0	22	90	4	68	54	4	4	35	1.42
4586919--4586950	3	10.7	3	100	0	64	34	31	0	34	1.58
4587060--4587416	41	8.6	41	85	1	383	33	25	24	15	1.95
4587113--4587414	41	7.3	41	89	1	390	32	26	24	15	1.95
4587112--4587410	84	3.6	83	86	3	395	33	26	24	15	1.95
4587465--4587591	40	3.2	39	76	5	112	18	25	21	35	1.95
4595111--4595145	14	2.5	14	90	9	54	57	5	0	37	1.23
4595317--4595358	20	2.1	20	86	8	59	59	9	2	28	1.41
4596126--4596568	125	3.5	124	87	0	616	33	17	20	28	1.95
4597020--4597060	18	2.3	18	95	0	73	46	7	29	17	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4597709--4597734	7	3.7	7	100	0	52	57	15	0	26	1.38
4598202--4598246	23	2.0	23	100	0	90	37	44	4	13	1.64
4599258--4599355	51	1.9	51	87	4	144	46	3	24	25	1.67
4599319--4599381	22	2.8	22	80	20	69	44	3	30	22	1.68
4599892--4599963	5	14.4	5	73	21	53	4	36	0	59	1.17
4599866--4599968	43	2.4	42	77	16	120	4	33	0	61	1.17
4601787--4601866	21	3.8	21	77	12	92	22	8	10	58	1.57
4601792--4601993	42	4.7	42	81	7	194	21	11	10	55	1.65
4601802--4601967	45	3.8	44	85	3	212	22	10	10	56	1.63
4606057--4606123	18	3.7	18	70	4	53	38	4	0	56	1.19
4606064--4606139	13	6.1	13	73	11	54	42	3	0	53	1.19
4606091--4606139	26	1.9	25	84	12	64	46	0	0	53	1.00
4606104--4606162	14	4.5	13	74	19	52	50	1	0	47	1.11
4606280--4606326	21	2.3	20	80	20	53	72	0	10	17	1.12
4608468--4608542	31	2.4	30	73	6	78	24	26	26	22	2.00
4608851--4608901	26	1.9	27	92	4	86	41	41	3	13	1.63
4610331--4610357	14	1.9	14	100	0	54	33	7	0	59	1.25
4610525--4610558	18	1.9	17	88	5	50	17	5	14	61	1.52
4611681--4611712	15	2.1	15	100	0	64	18	0	6	75	1.01
4616099--4616134	16	2.2	16	90	0	54	41	2	0	55	1.14
4618307--4618359	9	5.7	9	76	8	52	71	0	3	24	1.02
4622000--4622047	25	1.9	25	86	0	69	31	18	22	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4627817--4627857	19	2.0	21	86	9	59	60	2	12	24	1.43
4633917--4634110	104	1.9	104	85	4	275	26	19	29	24	1.98
4653702--4653739	10	3.6	11	79	13	53	71	2	0	26	1.00
4655985--4656026	20	2.1	20	86	0	57	52	0	2	45	1.13
4667894--4668066	71	2.4	71	80	3	188	23	15	25	35	1.94
4668054--4668105	19	2.7	19	96	0	95	25	25	28	21	1.99
4668823--4668952	19	6.7	19	66	5	64	16	18	27	36	1.93
4668825--4668952	58	2.2	58	84	0	157	17	18	27	36	1.93
4673654--4673689	16	2.2	17	95	5	65	47	0	8	44	1.33
4680537--4680611	29	2.5	29	82	4	87	48	16	12	24	1.79
4683238--4683277	18	2.2	18	90	0	62	22	10	7	60	1.54
4686111--4686186	37	2.1	37	97	0	143	11	25	5	57	1.54
4686172--4686209	3	12.7	3	100	0	76	0	31	0	68	0.90
4686238--4686305	3	22.3	3	84	3	91	30	2	2	63	1.24
4692654--4693515	88	9.8	88	80	3	824	26	26	24	21	2.00
4692883--4692909	13	2.1	13	100	0	54	14	33	14	37	1.88
4692712--4693114	132	3.1	130	84	7	526	24	26	25	23	2.00
4692654--4693247	220	2.7	219	73	8	547	26	27	24	22	2.00
4693541--4693681	43	3.3	43	72	5	158	26	27	21	24	1.99
4693503--4693701	87	2.4	80	84	12	283	25	25	25	24	2.00
4693673--4693759	44	2.0	44	95	0	156	25	17	27	29	1.97
4693533--4693704	87	2.0	87	94	2	301	27	24	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693899--4694000	45	2.3	46	81	13	124	30	18	25	25	1.98
4693745--4694181	217	2.0	219	86	3	605	31	20	21	27	1.98
4693757--4694134	44	8.7	44	70	11	201	30	20	21	27	1.98
4695700--4695761	3	20.3	3	86	3	88	30	3	1	64	1.19
4696154--4696249	8	11.6	8	72	23	58	23	8	4	63	1.40
4696179--4696277	23	4.5	22	69	23	64	21	11	7	60	1.53
4696154--4696283	66	2.0	66	98	0	251	22	10	6	61	1.49
4706892--4706933	20	2.2	19	83	12	50	35	2	0	61	1.09
4707233--4707300	28	2.5	27	78	19	79	60	1	0	38	1.06
4719092--4719117	13	2.0	13	100	0	52	61	7	7	23	1.49
4719092--4719125	12	2.8	12	90	4	50	55	8	8	26	1.59
4719274--4719323	23	2.2	22	82	3	55	50	2	8	40	1.43
4721851--4721882	12	2.7	12	100	0	64	65	0	0	34	0.93
4722359--4722383	13	1.9	13	100	0	50	56	0	0	44	0.99
4728403--4728554	43	3.5	43	82	1	180	27	15	26	30	1.96
4728371--4728554	86	2.1	86	82	2	217	26	15	27	30	1.96
4729589--4729640	20	2.6	20	90	0	86	15	15	28	40	1.88
4731605--4731670	22	3.1	22	82	4	73	36	7	21	34	1.82
4736969--4736999	3	10.7	3	93	6	55	64	0	35	0	0.94
4737005--4737110	48	2.2	46	75	14	108	62	0	33	2	1.16
4739059--4739145	33	2.6	34	73	10	90	19	39	14	26	1.91
4739470--4739501	8	4.0	8	100	0	64	50	25	0	25	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4739488--4739580	48	1.9	48	97	0	177	48	12	7	31	1.69
4743426--4743460	14	2.7	13	87	12	54	0	22	2	74	0.95
4743798--4743864	17	3.8	17	77	15	64	29	0	2	67	1.06
4756259--4756317	29	2.0	29	93	0	100	57	8	3	30	1.45
4759292--4759348	11	5.0	11	73	4	51	54	1	0	43	1.10
4759292--4759349	22	2.5	22	83	5	71	53	1	0	44	1.10
4759292--4759349	12	5.0	12	75	14	50	53	1	0	44	1.10
4765758--4765813	21	2.7	20	78	10	58	26	5	7	60	1.44
4765844--4765868	2	12.5	2	100	0	50	48	0	0	52	1.00
4765852--4765939	25	3.6	25	72	6	81	38	6	3	51	1.46
4768913--4769059	35	4.2	35	91	0	231	18	11	29	40	1.86
4772611--4772684	9	8.3	9	72	14	64	63	1	1	33	1.11
4772620--4772683	16	3.8	17	83	10	78	62	1	1	34	1.14
4773228--4773261	16	2.1	16	88	0	50	73	2	2	20	1.09
4773227--4773300	28	2.6	29	72	6	71	64	6	4	24	1.35
4773287--4773392	10	10.6	10	72	13	76	61	3	1	33	1.25
4773268--4773372	30	3.4	31	88	9	144	62	4	0	31	1.22
4773288--4773382	21	4.7	19	74	15	68	62	4	1	32	1.22
4773740--4773798	28	2.1	29	83	3	75	33	3	5	57	1.37
4783766--4783812	11	4.1	11	83	8	58	72	0	2	25	0.96
4789285--4789631	173	2.0	174	99	0	687	15	25	19	39	1.91
4791189--4791885	349	2.0	348	97	0	1313	39	7	25	27	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4797425--4797462	11	3.3	12	82	14	53	36	0	0	63	0.95
4799242--4799278	9	4.1	9	85	0	56	48	13	8	29	1.71
4800072--4800098	5	5.4	5	100	0	54	18	18	18	44	1.87
4800497--4800546	22	2.3	22	96	0	91	8	30	8	54	1.58
4801464--4801530	34	1.9	35	90	3	109	32	8	13	44	1.75
4801511--4801596	33	2.6	33	75	12	88	25	8	19	46	1.77
4804603--4804695	45	2.1	44	86	6	125	36	27	2	33	1.69
4804684--4804748	16	4.1	16	87	0	103	24	30	4	40	1.75
4804677--4804744	32	2.1	32	97	0	127	26	27	2	42	1.70
4811870--4811925	2	28.0	2	88	0	85	48	3	1	46	1.30

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