genome.fa.s4.2.7.7.80.10.50.1000.12.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: 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  12  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)
3961834--3961870	1	37.0	1	100	0	74	0	0	0	100	0.00
3963394--3963426	15	2.2	15	94	0	57	54	6	15	24	1.63
3967731--3967774	15	3.0	15	76	6	54	20	0	2	77	0.88
3967744--3967790	18	2.6	18	77	12	51	21	2	4	72	1.12
3970801--3970845	20	2.2	20	84	7	56	40	4	8	46	1.55
3971638--3971675	19	2.0	19	90	10	60	63	0	2	34	1.09
3979116--3979156	14	2.6	17	85	14	54	65	9	0	24	1.22
3981251--3981291	14	2.6	17	85	14	54	65	9	0	24	1.22
3983695--3983729	16	2.2	16	89	0	52	71	0	20	8	1.11
3983984--3984175	95	2.0	96	98	1	377	41	10	6	42	1.64
3985563--3985973	201	2.0	204	93	3	702	37	17	14	30	1.90
3989220--3989247	14	2.0	14	100	0	56	42	14	14	28	1.84
3994241--3994272	3	10.7	3	100	0	64	65	0	0	34	0.93
3999989--4000401	119	3.5	119	100	0	826	22	13	26	38	1.91
4001050--4001153	41	2.5	41	84	0	136	24	21	26	27	1.99
4004027--4004080	22	2.4	24	84	9	69	14	9	7	68	1.38
4009503--4009557	8	6.6	8	85	8	56	49	20	1	29	1.59
4009510--4009561	4	13.5	4	88	8	81	50	21	0	28	1.49
4012099--4012131	18	1.9	17	88	11	50	66	0	3	30	1.06
4013549--4013751	99	2.0	100	91	0	327	25	17	14	42	1.87
4015885--4016017	58	2.3	59	80	3	153	44	15	15	25	1.85
4025618--4025659	21	2.0	21	85	0	57	54	2	42	0	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4025626--4025707	12	6.8	12	79	5	58	51	1	40	7	1.38
4025679--4025723	3	15.0	3	86	9	65	64	0	35	0	0.94
4028281--4028348	21	3.2	20	66	25	50	25	13	20	41	1.88
4028283--4028350	22	3.1	21	66	26	52	25	11	20	42	1.86
4028271--4028369	43	2.3	43	89	3	155	28	15	16	40	1.88
4031023--4031064	20	2.1	20	95	0	75	38	7	23	30	1.82
4042314--4042338	2	12.5	2	100	0	50	48	0	0	52	1.00
4042967--4043006	16	2.5	16	91	0	62	47	2	7	42	1.45
4043002--4043144	75	2.0	71	84	11	188	41	4	9	44	1.57
4043918--4043952	14	2.5	14	90	0	52	48	8	17	25	1.75
4062658--4062705	25	1.9	25	91	8	80	52	14	0	33	1.42
4062654--4062712	25	2.4	24	83	8	75	52	15	0	32	1.43
4064772--4064941	4	42.5	4	100	0	340	50	24	0	25	1.50
4069093--4069121	13	2.2	13	100	0	58	31	20	17	31	1.96
4069205--4069247	18	2.4	18	88	7	61	46	0	0	53	1.00
4091668--4091714	9	5.2	9	94	0	76	38	14	23	23	1.92
4091668--4091718	18	2.8	18	90	0	84	37	17	21	23	1.94
4102144--4102168	12	2.1	12	100	0	50	60	0	0	40	0.97
4110084--4110376	153	1.9	153	83	4	376	39	15	19	26	1.91
4117650--4118178	114	4.6	117	84	5	586	31	20	22	25	1.98
4117764--4118178	229	1.8	229	83	5	552	31	20	22	25	1.98
4118107--4118253	76	1.9	75	82	6	181	29	21	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4117993--4118366	189	2.0	189	84	4	486	31	20	22	25	1.98
4118822--4118853	14	2.3	14	94	0	55	25	0	25	50	1.50
4118795--4118880	39	2.2	39	87	0	118	26	2	23	47	1.63
4119148--4119209	7	8.7	7	83	3	79	24	0	41	33	1.55
4119145--4119209	14	4.6	14	88	3	103	23	0	40	36	1.55
4119158--4119224	29	2.3	28	82	2	71	26	1	35	35	1.66
4122224--4122318	25	3.8	25	94	2	156	18	22	21	37	1.94
4123832--4123965	9	14.4	9	69	20	80	45	17	0	36	1.54
4124473--4124518	2	23.0	2	100	0	92	50	0	0	50	1.00
4125610--4125656	20	2.4	19	76	13	51	65	0	2	31	1.04
4125654--4126155	251	2.0	251	99	0	986	41	6	12	39	1.68
4127302--4127463	85	1.9	85	89	3	256	25	21	27	25	1.99
4127302--4127463	42	3.8	42	90	3	245	25	21	27	25	1.99
4128207--4128365	42	3.8	42	91	2	239	25	22	27	25	2.00
4126658--4129083	905	2.7	883	97	2	4456	38	13	16	31	1.87
4132695--4132725	15	2.1	15	100	0	62	32	19	6	41	1.77
4134835--4134961	62	2.0	63	98	1	247	37	3	11	48	1.55
4140383--4140426	18	2.7	15	86	13	52	56	6	0	36	1.26
4144461--4144558	30	3.3	30	84	7	112	33	22	2	41	1.65
4145183--4145232	24	2.1	24	96	0	91	78	0	22	0	0.76
4145176--4145262	21	4.1	20	77	15	77	77	0	20	2	0.89
4145182--4145264	10	7.9	10	76	9	76	78	0	19	2	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4145179--4145262	11	7.5	11	76	11	82	77	0	20	2	0.88
4145350--4145388	18	2.3	18	82	8	55	51	30	15	2	1.57
4145487--4145545	32	1.9	30	82	6	73	22	42	28	6	1.79
4145562--4145597	15	2.5	14	90	4	54	86	0	13	0	0.58
4145562--4145597	8	4.9	8	86	13	51	86	0	13	0	0.58
4145566--4145590	13	1.9	13	100	0	50	88	0	12	0	0.53
4145909--4145952	19	2.3	19	88	0	61	34	9	6	50	1.61
4146066--4146110	17	2.6	17	78	0	54	42	13	6	37	1.70
4146056--4146409	35	10.2	34	72	11	168	31	11	11	46	1.75
4146088--4146447	17	20.4	18	69	12	117	31	11	10	46	1.74
4146363--4146465	18	5.6	19	74	15	99	31	6	7	54	1.55
4146363--4146465	19	5.6	18	71	15	77	31	6	7	54	1.55
4159093--4159130	14	2.5	15	83	12	51	76	5	0	18	0.97
4161065--4161147	39	2.1	39	90	0	130	33	25	13	27	1.93
4162594--4162804	110	1.9	109	80	5	248	37	14	13	34	1.85
4166102--4166160	18	3.3	18	75	17	68	44	0	0	55	0.99
4166106--4166166	20	3.2	20	73	20	67	39	0	0	60	0.97
4166100--4166185	36	2.4	37	86	5	122	39	0	1	59	1.05
4172404--4172442	16	2.4	16	82	0	51	46	2	7	43	1.46
4172376--4172430	22	2.5	22	81	0	65	50	1	1	45	1.22
4183861--4183908	25	1.9	25	87	8	71	52	12	2	33	1.51
4183857--4183915	25	2.4	24	80	8	66	52	13	1	32	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4188833--4188889	28	2.0	28	100	0	114	43	3	14	38	1.62
4190246--4190338	42	2.2	42	81	7	100	33	18	8	39	1.81
4207757--4207830	36	2.0	37	94	2	132	20	22	5	51	1.68
4208063--4208099	18	2.1	18	100	0	74	29	5	16	48	1.68
4213835--4213893	25	2.4	25	80	5	66	52	16	0	30	1.44
4217499--4217627	9	15.3	9	74	15	116	45	22	0	31	1.53
4217500--4217639	25	5.3	25	78	16	147	45	22	0	31	1.53
4217529--4217639	50	2.2	49	90	1	168	45	23	0	30	1.53
4217499--4217627	16	7.6	17	71	18	92	45	22	0	31	1.53
4217562--4217639	16	4.7	17	78	12	65	46	21	0	32	1.52
4219435--4219787	40	8.7	40	85	9	491	30	23	21	24	1.99
4219435--4219792	82	4.4	82	93	2	607	30	23	21	24	1.99
4221698--4221747	26	1.9	26	87	0	73	24	4	0	72	1.02
4222842--4223112	25	10.4	25	79	12	271	47	20	0	31	1.53
4222842--4223109	50	5.1	50	79	17	305	47	20	0	31	1.54
4222845--4223109	34	7.9	34	74	13	138	47	21	0	31	1.54
4222845--4223105	9	30.8	9	74	15	227	47	21	0	31	1.54
4225900--4225938	17	2.2	19	86	9	55	38	2	0	58	1.12
4225935--4225963	14	2.1	14	93	6	51	34	0	10	55	1.34
4226831--4226944	42	2.7	43	87	1	167	32	21	24	21	1.98
4226834--4226944	43	2.6	43	88	1	161	33	21	24	20	1.97
4240369--4240407	17	2.2	19	86	9	55	38	2	0	58	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4240404--4240432	14	2.1	14	93	6	51	34	0	10	55	1.34
4240813--4240871	21	2.8	21	86	0	82	25	22	50	1	1.58
4241292--4241401	43	2.6	43	88	1	159	33	20	24	21	1.97
4241295--4241429	43	3.2	43	84	5	150	33	20	23	22	1.97
4250197--4250315	36	3.3	36	100	0	238	24	32	19	23	1.97
4257327--4257385	25	2.4	25	85	2	84	54	15	0	30	1.42
4260831--4260873	18	2.4	18	88	7	61	46	0	0	53	1.00
4266865--4267210	153	2.3	153	87	4	493	39	14	21	25	1.91
4268975--4269025	25	2.0	25	100	0	102	27	7	19	45	1.78
4276831--4276861	14	2.3	14	94	5	55	54	29	0	16	1.42

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