genome.fa.s4.2.7.7.80.10.50.1000.9.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  9  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)
2929638--2929688	19	2.7	19	82	11	61	37	0	5	56	1.23
2929832--2929888	23	2.5	23	88	0	87	43	14	14	28	1.83
2931538--2931569	12	2.5	13	90	10	57	65	0	6	28	1.16
2938493--2938543	13	3.9	13	78	0	66	31	7	25	35	1.85
2944135--2944159	2	12.5	2	100	0	50	52	0	0	48	1.00
2945010--2945090	2	40.5	2	89	0	126	44	1	54	0	1.08
2949157--2949860	44	16.7	44	77	11	573	26	18	25	29	1.98
2949241--2949355	34	3.1	35	75	22	133	26	20	26	26	1.99
2949157--2949396	122	2.0	122	90	3	385	25	18	26	29	1.98
2949542--2949606	34	1.9	34	96	0	121	24	23	23	29	1.99
2949615--2949933	122	2.7	114	82	9	299	25	17	26	31	1.97
2949540--2949860	166	1.9	166	94	1	563	24	17	26	31	1.97
2950035--2950147	44	2.6	44	79	0	127	30	18	22	29	1.97
2949885--2950245	176	2.1	175	91	1	589	31	18	23	26	1.98
2949951--2950236	88	3.3	87	67	14	244	30	20	23	25	1.99
2949906--2950286	176	2.2	175	87	1	460	30	19	23	27	1.98
2950924--2950981	19	2.7	22	84	10	68	36	8	17	37	1.80
2951185--2951229	23	2.0	23	81	0	54	22	0	15	62	1.33
2951383--2951429	23	2.0	23	84	8	60	38	2	0	59	1.09
2951575--2951604	3	10.0	3	100	0	60	33	0	0	66	0.92
2951637--2951675	19	2.0	19	85	5	51	33	20	5	41	1.74
2953184--2953217	17	2.0	17	94	0	59	79	0	11	8	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2954784--2954862	40	1.9	43	84	7	110	60	1	1	36	1.13
2954894--2955107	107	2.0	107	96	1	394	17	29	21	31	1.96
2966799--2966832	17	1.9	18	88	5	52	17	5	2	73	1.16
2975556--2975670	21	5.5	21	78	0	131	17	22	16	43	1.88
2975549--2975673	42	3.0	42	90	0	196	16	21	16	44	1.86
2977670--2977699	15	2.1	14	93	6	51	0	10	0	90	0.47
2979008--2979090	41	2.0	41	100	0	166	16	14	26	42	1.87
2980541--2980575	18	1.9	18	88	0	52	34	2	0	62	1.10
2980559--2980597	20	2.0	20	85	10	53	46	0	0	53	1.00
3006270--3006407	40	3.5	40	76	9	138	36	23	21	18	1.95
3006445--3006625	41	4.4	41	88	4	274	19	25	27	28	1.99
3013153--3013309	43	3.7	44	93	3	259	21	18	33	26	1.96
3020333--3020374	22	1.9	22	85	9	59	47	0	0	52	1.00
3028439--3028576	63	2.2	63	81	5	154	21	36	17	25	1.94
3031934--3031963	15	1.9	16	93	6	53	60	0	0	40	0.97
3034235--3034314	42	1.9	42	100	0	160	52	15	3	28	1.59
3037472--3037523	27	1.9	27	96	0	95	19	11	1	67	1.31
3058216--3058256	18	2.5	15	79	20	55	36	0	29	34	1.58
3058221--3058257	18	2.1	18	100	0	74	37	0	27	35	1.57
3074519--3074577	29	2.0	29	100	0	118	45	13	16	23	1.83
3084397--3084424	4	7.0	4	100	0	56	75	0	0	25	0.81
3089983--3090060	28	2.8	28	78	7	95	33	1	0	65	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3089991--3090028	20	1.9	20	88	0	58	28	2	0	68	1.03
3089977--3090077	39	2.6	40	81	7	120	35	0	0	63	1.01
3090028--3090053	11	2.4	11	100	0	52	38	0	0	61	0.96
3090962--3091003	22	1.9	22	85	9	59	50	0	2	47	1.14
3090957--3091697	368	2.0	369	99	0	1475	32	15	9	42	1.78
3091687--3091957	145	1.9	145	87	3	402	30	12	18	38	1.88
3093130--3093159	12	2.6	12	94	5	53	26	6	0	66	1.16
3093182--3093244	19	3.3	19	82	6	74	34	0	4	60	1.18
3094948--3094983	13	2.6	15	87	12	51	13	0	2	83	0.76
3107265--3107289	2	12.5	2	100	0	50	52	0	0	48	1.00
3111347--3111883	265	2.0	266	98	0	1049	40	10	7	41	1.68
3122927--3123382	228	2.0	228	99	0	903	43	8	6	42	1.59
3126863--3126900	18	2.1	19	95	5	69	47	2	0	50	1.15
3135134--3135187	17	3.2	17	100	0	108	37	5	22	35	1.77
3143037--3143065	3	9.7	3	100	0	58	34	0	34	31	1.58
3151493--3151535	21	2.0	23	86	9	63	37	0	2	60	1.10
3151497--3151548	23	2.2	23	80	13	61	38	3	3	53	1.37
3153615--3153676	17	3.6	17	72	20	58	51	11	3	33	1.54
3156494--3156538	23	2.0	23	82	8	56	55	6	4	33	1.46
3163444--3163512	4	17.2	4	78	14	56	72	0	26	1	0.93
3163444--3163545	22	5.0	22	71	20	80	71	0	27	0	0.92
3163447--3163545	39	2.5	40	85	6	141	71	0	27	1	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3163444--3163514	33	2.2	33	81	16	87	71	0	26	1	0.94
3163449--3163512	29	2.3	27	80	17	69	71	0	26	1	0.94
3163441--3163566	40	3.3	40	77	9	122	69	0	30	0	0.95
3163507--3163565	29	1.9	29	83	10	73	69	0	30	0	0.89
3163797--3163888	4	22.5	4	72	16	73	70	1	27	1	1.01
3163800--3163886	30	2.8	30	79	14	97	68	1	28	1	1.03
3163797--3163882	18	4.6	19	78	16	83	69	1	27	1	1.03
3163801--3163972	43	4.2	42	74	17	139	68	1	27	2	1.09
3163795--3163973	82	2.3	78	83	11	206	68	1	27	2	1.11
3169603--3169641	19	2.2	18	90	9	62	48	17	0	33	1.48
3169968--3170039	28	2.6	28	91	2	110	50	1	8	40	1.41
3169967--3170039	27	2.7	27	85	8	94	49	1	8	41	1.41
3172712--3172759	25	2.0	25	87	4	71	52	2	0	45	1.12
3175087--3175697	124	4.9	124	89	0	848	33	20	15	31	1.93
3175104--3175683	247	2.3	248	88	1	851	32	20	15	31	1.94
3181177--3181212	18	2.0	18	100	0	72	11	16	22	50	1.77
3188663--3188700	8	4.9	8	80	6	51	36	0	0	63	0.95
3188663--3188700	16	2.4	16	91	4	60	36	0	0	63	0.95
3192037--3192091	3	18.3	3	78	14	60	34	1	1	61	1.17
3198746--3199000	45	5.7	45	72	9	189	31	16	25	26	1.96
3198716--3199038	89	3.6	89	82	1	423	31	16	25	27	1.96
3200498--3200543	3	15.3	3	82	8	58	36	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3207938--3208081	43	3.4	42	78	6	155	18	20	30	30	1.96
3207962--3208098	43	3.2	43	84	3	161	21	23	27	27	1.99
3207962--3208272	43	7.2	43	80	2	156	26	28	22	22	1.99
3208069--3208272	87	2.4	86	87	4	286	29	32	18	19	1.95
3208578--3208665	21	4.2	21	80	0	104	6	44	15	32	1.73
3208675--3208826	66	2.3	66	86	4	200	15	26	19	38	1.92
3218249--3218327	39	2.0	39	95	0	140	21	21	11	45	1.83
3220610--3220646	18	2.0	19	89	5	58	59	0	0	40	0.97
3221416--3221452	19	1.9	19	88	0	56	43	2	16	37	1.62
3222200--3222306	49	2.2	49	86	3	144	42	14	11	32	1.80
3229004--3229030	14	1.9	14	100	0	54	3	22	29	44	1.70
3233986--3234051	32	2.1	31	83	8	80	40	1	4	53	1.31
3235355--3235394	21	1.9	21	89	0	62	32	0	30	37	1.58
3239973--3240001	14	2.0	15	93	6	51	68	6	20	3	1.27
3240423--3240456	17	1.9	18	94	5	61	44	0	20	35	1.52
3241117--3241150	16	2.1	17	88	5	52	44	0	23	32	1.54
3241212--3241245	18	1.9	18	88	5	52	47	0	26	26	1.53
3241330--3241382	21	2.5	21	88	11	90	18	26	22	32	1.97
3243805--3243846	10	4.1	10	82	11	50	61	0	0	38	0.96
3243805--3243849	22	2.1	22	87	4	65	62	0	0	37	0.96
3245888--3245926	2	19.5	2	94	0	69	53	0	0	46	1.00
3245994--3246106	28	4.0	27	73	13	102	33	13	19	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3245998--3246131	58	2.3	58	84	5	173	35	12	19	32	1.89
3246034--3246130	28	3.2	30	76	8	99	36	12	16	35	1.86
3247641--3247693	27	2.0	27	96	0	97	30	5	28	35	1.80
3248897--3248936	18	2.1	20	86	9	57	62	0	0	37	0.95
3257390--3257414	3	8.3	3	100	0	50	32	0	36	32	1.58
3263285--3264202	39	23.4	39	98	1	1746	18	20	22	38	1.93
3264722--3264753	15	2.3	15	89	10	50	40	0	18	40	1.51
3267805--3267838	15	2.3	15	89	0	50	41	8	0	50	1.34
3274825--3274867	6	6.7	6	84	10	50	81	6	0	11	0.87
3276854--3276892	21	1.9	20	84	5	51	35	7	0	56	1.28

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