genome.fa.s4.2.7.7.80.10.50.1000.13.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: Chr7
Parameters: 2 7 7 80 10 50 1000
Length:  55462051

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   

This is table  13  of  163  ( 19464 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)
4277744--4277868	27	4.6	27	85	4	171	21	32	25	20	1.98
4278168--4278257	40	2.4	36	82	12	101	33	5	8	52	1.56
4280779--4280808	16	1.9	15	93	6	51	20	3	6	70	1.25
4280957--4280990	16	2.2	15	94	5	59	20	2	5	70	1.21
4280779--4281135	182	2.0	182	93	0	615	29	9	5	54	1.56
4281216--4281279	30	2.1	30	100	0	128	6	10	9	73	1.25
4281566--4281691	10	12.6	10	73	15	84	0	28	0	70	0.93
4281559--4281688	43	3.1	43	80	13	171	0	28	0	70	0.92
4281559--4281691	38	3.3	39	83	9	155	0	29	0	69	0.93
4281622--4281701	24	3.3	24	67	22	60	1	31	0	67	0.99
4281579--4281676	34	2.9	34	82	10	96	1	27	0	71	0.93
4281743--4281811	27	2.6	27	73	0	66	17	27	34	20	1.95
4286199--4286246	25	1.9	25	91	8	80	52	14	0	33	1.42
4291045--4291076	16	2.0	17	88	11	50	28	25	3	43	1.69
4291462--4291487	5	5.2	5	100	0	52	19	19	19	42	1.90
4292709--4293087	153	2.5	153	85	4	505	37	17	19	25	1.94
4300087--4300137	25	2.0	25	100	0	102	43	11	11	33	1.78
4300391--4300472	42	2.0	42	92	0	137	39	8	21	30	1.84
4304353--4304451	47	2.1	47	100	0	198	38	12	6	43	1.67
4304525--4304553	12	2.3	13	94	5	51	58	6	0	34	1.25
4308337--4308370	14	2.5	14	90	4	52	0	20	2	76	0.92
4311941--4312000	30	2.0	31	86	3	86	40	0	40	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4312213--4312240	9	3.1	9	100	0	56	32	10	10	46	1.73
4317428--4317963	268	2.0	268	99	0	1063	24	26	23	26	2.00
4320972--4321287	153	2.1	153	86	5	444	36	16	21	25	1.94
4322735--4322787	26	2.1	26	89	3	81	52	13	0	33	1.40
4325509--4325564	27	2.0	28	96	3	105	30	23	17	28	1.97
4339354--4339722	153	2.4	153	91	3	584	38	16	20	24	1.92
4342894--4342921	2	14.0	2	100	0	56	50	0	0	50	1.00
4345498--4345554	23	2.4	24	82	11	73	52	15	0	31	1.43
4354310--4354361	25	2.0	27	85	14	74	57	9	0	32	1.31
4358883--4358915	16	2.0	17	94	5	59	39	0	0	60	0.97
4378505--4378562	29	2.0	30	89	3	91	37	12	22	27	1.89
4378593--4378944	173	2.0	174	89	1	544	33	12	18	35	1.88
4381821--4381872	16	3.2	16	83	5	68	65	0	25	9	1.23
4387617--4387671	23	2.5	22	88	8	85	45	23	3	27	1.69
4387786--4387851	5	13.2	5	86	0	96	37	1	19	40	1.61
4391174--4391225	26	2.0	26	84	0	68	65	7	11	15	1.46
4393536--4393780	112	2.2	113	97	0	465	35	6	13	44	1.69
4396200--4396254	23	2.3	23	76	14	58	12	16	5	65	1.43
4396992--4397033	18	2.4	18	76	4	50	76	21	0	2	0.90
4397098--4397134	4	8.8	4	88	11	56	21	2	0	75	0.92
4401456--4401480	2	12.5	2	100	0	50	52	0	0	48	1.00
4406499--4406540	19	2.2	19	100	0	84	21	9	19	50	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4418009--4419176	297	3.9	297	80	7	1197	38	10	14	35	1.81
4424276--4424318	18	2.4	18	84	7	52	39	2	4	53	1.34
4429725--4429769	24	1.9	23	86	4	63	31	2	0	66	1.04
4432549--4432751	108	1.9	108	98	1	370	37	14	18	29	1.91
4436629--4436684	25	2.3	23	82	11	60	55	0	1	42	1.10
4436621--4436693	21	3.3	21	73	14	65	57	0	1	41	1.07
4455503--4455542	20	2.0	20	100	0	80	60	10	0	30	1.30
4455507--4455551	20	2.2	20	88	4	63	64	11	2	22	1.36
4459006--4459165	79	2.0	80	98	1	313	40	6	6	47	1.54
4460315--4460352	11	3.2	12	82	14	51	39	0	0	60	0.97
4460314--4460355	13	3.4	12	80	12	50	40	0	0	59	0.97
4465980--4466020	3	13.7	3	94	0	73	68	2	0	29	1.03
4467246--4467288	6	6.8	6	83	2	50	18	20	16	44	1.87
4469073--4469115	10	4.5	10	82	8	54	58	0	0	41	0.98
4470570--4470594	13	1.9	13	100	0	50	32	0	0	68	0.90
4475927--4476002	39	1.9	39	89	0	116	31	30	11	26	1.92
4477505--4477543	21	1.9	20	84	5	51	41	25	2	30	1.69
4493467--4493560	46	2.0	46	100	0	188	32	14	17	35	1.90
4493914--4493955	6	7.0	6	94	0	75	33	2	30	33	1.71
4495377--4495450	22	3.4	22	83	10	82	55	4	0	40	1.19
4495384--4495489	56	1.9	57	83	11	139	53	4	0	40	1.28
4497784--4497868	9	9.2	9	78	14	66	28	1	0	70	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4497792--4497841	8	6.0	8	79	6	55	32	0	0	68	0.90
4497817--4497924	39	2.6	41	85	8	139	33	0	0	64	1.06
4498607--4498641	15	2.3	15	90	0	52	28	0	0	71	0.86
4498574--4498647	37	2.0	36	82	7	87	31	0	2	66	1.06
4505371--4505479	54	2.0	54	94	3	193	40	1	0	57	1.09
4508119--4508152	16	2.1	17	88	5	52	50	0	0	50	1.00
4507896--4508424	264	2.0	265	99	0	1051	40	14	13	31	1.85
4512434--4512467	14	2.4	14	95	0	59	61	2	0	35	1.11
4512929--4512966	19	2.0	19	100	0	76	31	5	15	47	1.68
4512972--4513008	14	2.6	14	95	0	65	37	10	8	43	1.69
4513358--4513391	18	1.9	18	88	5	52	55	2	0	41	1.15
4514591--4514637	23	2.0	23	83	0	58	27	10	17	44	1.81
4518468--4518493	6	4.3	6	100	0	52	53	0	30	15	1.42
4543482--4543515	18	1.9	18	88	5	52	38	8	0	52	1.33
4563659--4563710	20	2.6	19	81	9	50	73	5	15	5	1.22
4564966--4565081	45	2.8	39	77	15	117	19	20	21	37	1.94
4564987--4565087	45	2.2	45	92	0	166	19	18	20	40	1.92
4565067--4565121	6	8.8	6	87	2	74	18	20	16	45	1.86
4569720--4570025	111	2.7	110	92	2	513	30	12	23	33	1.92
4570021--4570088	6	11.3	6	100	0	136	83	0	16	0	0.64
4579898--4580047	81	1.9	81	94	0	264	34	15	14	36	1.88
4592513--4592567	21	2.6	22	91	8	96	23	9	40	27	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4592679--4592765	27	3.1	27	66	18	79	51	5	1	41	1.33
4596404--4596432	14	2.0	15	93	6	51	48	0	24	27	1.51
4607556--4607585	14	2.1	15	93	6	53	46	0	26	26	1.53
4608005--4608073	36	1.9	36	100	0	138	50	10	20	18	1.75
4609730--4609896	87	1.9	87	92	2	282	30	16	21	31	1.96
4615604--4615721	60	2.0	61	83	8	152	44	6	6	42	1.57
4623903--4623950	23	2.0	24	92	8	80	25	16	18	39	1.91
4624785--4624815	14	2.1	15	94	5	55	48	0	25	25	1.52
4626315--4626364	21	2.4	21	82	0	64	44	4	4	48	1.40
4638613--4638673	31	2.0	31	93	0	104	49	3	8	39	1.49
4640533--4640557	12	2.1	12	100	0	50	52	0	8	40	1.31
4645109--4645139	14	2.1	15	94	5	55	48	0	25	25	1.52
4646643--4646681	3	13.0	3	100	0	78	66	0	0	33	0.92
4647334--4647618	153	1.9	153	82	1	365	23	21	17	37	1.94
4649857--4650432	287	2.0	288	99	0	1145	34	15	18	30	1.93
4651744--4651768	3	8.3	3	100	0	50	32	68	0	0	0.90
4658405--4658442	17	2.2	17	90	0	58	7	26	7	57	1.54
4660708--4660742	17	2.1	17	89	10	54	40	0	0	60	0.97
4663948--4663982	17	2.1	17	89	10	54	40	0	0	60	0.97
4667026--4667056	14	2.1	15	94	5	55	48	0	25	25	1.52
4686549--4687418	23	37.8	23	99	0	1731	13	30	25	30	1.94
4692353--4692387	15	2.4	15	90	4	54	48	0	8	42	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4692417--4692459	10	4.3	10	75	0	50	25	6	2	65	1.30
4700468--4700502	15	2.4	15	90	4	54	48	0	8	42	1.33
4705326--4705374	21	2.3	22	86	6	66	53	6	0	40	1.26
4706487--4706518	3	11.3	3	87	12	50	68	0	0	31	0.90
4720900--4720931	15	2.1	16	94	5	57	28	0	3	68	1.04
4727327--4727394	34	2.0	34	94	5	120	29	14	23	32	1.94
4732024--4732070	23	2.0	24	84	8	62	12	19	17	51	1.77
4738291--4738316	12	2.2	12	100	0	52	19	15	26	38	1.91
4741349--4743067	859	2.0	859	99	0	3384	24	25	19	31	1.98
4746598--4746680	32	2.6	31	92	7	132	56	0	3	39	1.17

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163