genome.fa.s7.2.7.7.80.10.50.1000.12.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  12  of  79  ( 9388 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)
4056180--4056224	23	2.0	23	86	0	63	42	0	4	53	1.21
4056181--4056231	23	2.3	23	82	3	59	47	0	3	49	1.20
4056364--4056528	82	2.0	83	98	1	323	32	12	4	50	1.61
4057148--4057172	3	8.3	3	100	0	50	0	32	0	68	0.90
4067224--4067261	20	1.9	19	89	5	58	42	2	7	47	1.46
4070566--4070599	18	1.9	18	88	5	52	61	5	2	29	1.34
4072540--4072566	14	1.9	14	100	0	54	29	7	11	51	1.64
4073158--4073216	3	19.7	3	100	0	118	66	0	0	33	0.92
4073610--4073669	10	6.0	10	75	14	52	26	0	5	68	1.10
4073604--4073650	19	2.5	18	80	16	51	23	0	4	72	1.02
4074732--4074764	14	2.4	14	90	5	50	51	30	0	18	1.46
4078840--4078871	15	2.1	16	88	11	50	6	31	0	62	1.20
4081578--4081649	31	2.4	30	84	6	92	29	4	11	55	1.53
4081703--4081749	19	2.5	18	83	16	60	36	8	0	55	1.31
4082087--4082142	21	2.8	19	79	10	60	30	5	0	64	1.16
4082087--4082144	19	2.9	19	73	14	55	31	5	0	63	1.16
4082087--4082220	9	13.9	9	71	14	81	34	4	1	59	1.26
4082096--4082220	19	6.4	19	72	15	69	35	4	1	59	1.26
4082117--4082226	49	2.3	51	75	15	117	35	3	1	59	1.26
4082229--4082307	35	2.4	33	83	10	92	63	7	1	27	1.29
4090302--4090331	13	2.3	13	94	0	51	33	3	13	50	1.58
4090426--4090667	50	4.8	50	91	0	367	24	22	31	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4092350--4092386	15	2.5	15	95	0	65	54	18	8	18	1.68
4092919--4093044	43	3.0	42	82	4	146	28	27	15	28	1.96
4097372--4097411	20	2.0	20	100	0	80	30	25	15	30	1.95
4098091--4098289	102	2.0	102	92	0	335	32	28	17	21	1.96
4098193--4098328	42	3.5	41	75	17	162	32	27	17	22	1.96
4098056--4098391	177	1.9	177	93	0	573	31	28	18	21	1.97
4098193--4098365	75	2.3	75	95	0	310	32	28	17	21	1.96
4099772--4099982	51	4.2	49	87	3	248	31	24	13	30	1.93
4099820--4099982	51	3.2	51	91	0	256	31	25	12	30	1.93
4104526--4104571	24	1.9	24	95	0	83	43	6	26	23	1.78
4109258--4109300	7	6.1	7	97	0	68	76	9	0	13	1.01
4118006--4118079	24	3.1	24	94	0	130	25	28	37	8	1.84
4121367--4121423	3	18.3	3	75	13	53	36	0	5	57	1.21
4121369--4121420	27	2.0	26	88	3	77	36	0	5	57	1.23
4122801--4123021	109	2.0	110	99	0	435	32	15	9	43	1.78
4133200--4133256	25	2.3	25	84	0	78	38	15	26	19	1.92
4147491--4147595	54	1.9	54	88	0	156	23	23	27	24	2.00
4147491--4147624	54	2.5	53	84	4	153	23	21	27	26	1.99
4149941--4149982	11	3.8	11	87	0	57	40	50	2	7	1.43
4150892--4150934	23	1.9	23	90	4	70	27	27	18	25	1.98
4161913--4161954	20	2.1	20	100	0	84	23	21	19	35	1.96
4178614--4178645	15	2.1	15	100	0	64	28	21	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4180593--4180633	19	2.2	19	100	0	82	34	31	14	19	1.92
4181207--4181249	13	3.5	13	75	18	56	46	16	2	34	1.60
4181205--4181249	23	2.0	23	100	0	90	44	17	2	35	1.62
4181946--4182007	30	2.1	30	100	0	124	32	22	12	32	1.92
4186623--4186665	20	2.2	20	87	4	61	25	13	13	46	1.81
4206238--4206285	21	2.3	21	88	0	69	25	10	52	12	1.71
4222468--4222498	5	6.2	5	92	0	53	41	16	19	22	1.89
4223408--4223444	9	4.1	9	92	0	65	29	10	13	45	1.77
4226305--4226356	24	2.2	24	89	0	77	53	7	3	34	1.48
4229898--4229988	44	2.1	44	95	0	164	29	13	10	46	1.77
4232461--4232756	30	9.9	30	99	0	574	20	42	0	37	1.52
4232753--4232787	5	7.2	5	96	3	63	0	82	0	17	0.66
4236181--4236212	15	2.1	15	94	0	55	28	0	6	65	1.16
4240235--4240275	6	7.0	6	88	5	66	31	2	0	65	1.05
4240239--4240272	17	2.0	17	94	0	59	29	2	0	67	1.05
4248781--4248809	2	14.5	2	100	0	58	51	0	0	48	1.00
4250510--4250543	11	3.0	11	95	4	59	64	0	0	35	0.94
4251280--4251314	19	1.9	18	88	11	54	17	8	28	45	1.77
4251978--4252113	42	3.3	40	91	7	218	37	2	0	60	1.09
4252026--4252113	31	2.8	32	81	13	94	38	2	0	59	1.10
4255677--4255908	116	2.0	116	100	0	464	31	14	17	36	1.90
4257135--4257189	24	2.3	23	75	9	56	36	1	1	60	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4257150--4257217	20	3.2	20	83	12	84	36	0	4	58	1.18
4257109--4257224	20	5.6	20	70	18	67	33	0	3	62	1.18
4257712--4257764	27	2.0	27	100	0	106	33	9	15	41	1.79
4258107--4258175	25	2.8	24	74	10	59	49	4	2	43	1.37
4259500--4259583	42	2.0	42	95	0	150	33	16	16	33	1.92
4261438--4261479	22	1.9	22	85	0	57	57	14	14	14	1.66
4263654--4263694	20	2.1	19	86	4	55	60	2	2	34	1.23
4263664--4263718	28	2.0	26	82	6	65	52	1	3	41	1.29
4272956--4273036	25	3.2	26	76	13	80	34	18	27	19	1.95
4285418--4285470	24	2.2	24	89	0	79	56	9	1	32	1.42
4286970--4287002	16	2.1	16	94	0	57	69	0	3	27	1.03
4286989--4287031	23	1.9	23	90	4	70	62	0	0	37	0.95
4289605--4289799	97	2.0	98	98	1	383	40	7	16	35	1.77
4291577--4291635	26	2.2	27	81	6	75	54	1	1	42	1.20
4292435--4292479	18	2.4	19	85	7	65	35	4	2	57	1.31
4294630--4294680	3	17.0	3	83	0	66	60	1	3	33	1.26
4294630--4294680	15	3.4	15	86	10	77	60	1	3	33	1.26
4295302--4295332	9	3.4	9	90	0	53	25	12	22	38	1.90
4295386--4295422	9	4.1	9	92	0	65	45	13	10	29	1.77
4297364--4297888	132	4.0	132	88	0	737	25	24	19	30	1.98
4298509--4298533	12	2.1	12	100	0	50	36	8	32	24	1.84
4306834--4306982	69	2.2	69	92	0	253	28	23	12	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4310446--4310493	3	16.0	3	82	0	60	60	2	4	33	1.27
4318760--4318849	45	2.0	46	82	6	112	41	7	18	32	1.79
4318856--4318888	7	5.0	7	92	7	52	60	0	24	15	1.35
4319458--4319518	26	2.3	26	85	0	77	26	1	6	65	1.26
4319842--4319949	52	2.1	52	100	0	216	41	12	17	27	1.86
4320322--4320367	13	3.5	13	85	5	58	54	0	0	45	0.99
4320329--4320378	9	5.7	9	88	2	75	52	2	0	46	1.12
4320333--4320395	18	3.6	17	83	8	65	50	4	0	44	1.23
4327182--4327224	11	3.9	11	84	9	61	62	0	0	37	0.95
4327182--4327231	11	4.6	10	80	14	55	64	2	0	34	1.05
4327184--4327225	21	2.0	22	95	4	77	61	0	0	38	0.96
4338456--4338501	24	1.9	24	90	0	74	56	6	19	17	1.62
4339276--4339902	109	5.8	107	83	5	755	33	20	17	28	1.95
4339276--4339902	216	2.9	217	91	1	967	33	20	17	28	1.95
4359605--4359670	21	3.1	21	86	4	80	36	16	42	4	1.69
4360121--4360277	43	3.7	43	89	3	219	26	22	19	31	1.98
4364743--4364780	16	2.4	16	86	8	51	71	2	2	23	1.12
4364737--4364794	19	3.2	18	80	14	59	70	3	1	24	1.12
4371009--4371047	20	2.0	20	94	0	69	48	0	2	48	1.15
4371146--4371185	20	2.0	20	85	0	53	50	10	10	30	1.69
4371134--4371200	34	1.9	35	90	3	109	46	10	8	34	1.70
4371246--4371283	16	2.4	16	86	0	58	23	26	5	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4380439--4380499	31	2.0	31	90	6	97	42	13	11	32	1.79
4391154--4391188	3	11.7	3	100	0	70	31	0	0	68	0.90
4391421--4391454	12	2.8	12	90	0	50	67	0	0	32	0.91
4400153--4400208	24	2.2	25	78	12	62	23	1	3	71	1.11
4404040--4404074	7	5.0	7	92	0	61	40	2	0	57	1.14
4409055--4409106	24	2.2	24	89	0	77	55	9	1	32	1.43
4410835--4410886	24	2.2	24	89	0	77	55	9	1	32	1.43
4417881--4417921	19	2.1	20	86	4	57	46	0	0	53	1.00
4423461--4423773	99	3.1	97	79	13	337	41	14	15	28	1.87
4423560--4423760	102	1.9	105	84	5	273	43	14	14	27	1.85

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