genome.fa.s9.2.7.7.80.10.50.1000.11.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: Chr09 85040211 
Parameters: 2 7 7 80 10 50 1000
Length:  85040211

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   

This is table  11  of  292  ( 35004 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)
3067968--3068159	94	2.0	95	96	1	359	47	9	19	22	1.79
3068614--3068644	16	1.9	16	93	0	53	16	9	3	70	1.26
3068683--3068773	45	2.0	45	100	0	182	38	8	21	30	1.84
3070276--3070396	37	3.3	36	74	17	115	39	3	3	53	1.34
3073370--3073403	3	11.3	3	87	0	50	0	5	29	64	1.17
3086404--3086437	17	1.9	18	88	5	52	73	0	11	14	1.10
3086440--3086485	22	2.2	21	81	18	60	39	21	8	30	1.84
3086452--3086499	22	2.2	22	81	7	53	45	25	6	22	1.75
3087075--3087167	41	2.3	39	81	10	98	37	2	1	59	1.17
3087114--3087185	18	3.8	19	82	8	85	37	0	2	59	1.12
3087093--3087184	19	4.7	19	75	9	78	40	0	2	57	1.11
3087091--3087159	22	3.3	21	74	11	70	42	0	0	57	0.98
3092093--3092153	23	2.6	24	75	12	56	57	0	4	37	1.20
3093278--3093358	42	1.9	42	92	0	135	58	8	27	6	1.52
3095636--3095834	85	2.4	85	83	5	244	25	16	15	43	1.87
3095680--3095824	42	3.4	42	71	5	105	24	16	14	44	1.85
3103726--3103787	2	31.0	2	90	0	97	48	3	0	48	1.17
3105523--3105572	3	16.7	3	100	0	100	32	0	0	68	0.90
3108111--3108148	19	2.0	19	100	0	76	42	0	21	36	1.53
3120591--3120621	16	2.0	16	93	6	55	45	12	6	35	1.68
3124602--3124628	10	2.7	10	100	0	54	37	0	29	33	1.58
3126010--3126422	203	2.0	203	100	0	826	24	27	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3126370--3126434	27	2.4	27	80	10	78	20	27	18	33	1.96
3126385--3126458	27	2.7	28	83	4	89	18	25	21	33	1.96
3126416--3126472	27	2.1	27	83	6	71	22	21	19	36	1.95
3129378--3129405	6	4.7	6	100	0	56	14	14	0	71	1.15
3129312--3129466	69	2.3	67	89	2	229	24	13	5	56	1.57
3129364--3129405	18	2.3	18	84	12	50	14	14	0	71	1.15
3133300--3133335	2	18.0	2	100	0	72	50	0	0	50	1.00
3134309--3134414	31	3.5	31	75	12	101	38	17	1	41	1.61
3135149--3135207	24	2.4	25	80	2	66	40	8	3	47	1.51
3135583--3135615	13	2.5	13	95	0	57	9	27	0	63	1.24
3140029--3140071	19	2.4	19	88	7	63	37	13	11	37	1.82
3140037--3140073	19	1.9	19	100	0	74	37	10	16	35	1.83
3140365--3140397	17	1.9	17	88	11	50	27	3	0	69	1.03
3149759--3149793	18	2.0	18	88	5	54	68	0	0	31	0.90
3150082--3150153	19	3.9	19	89	10	123	36	15	11	37	1.83
3150932--3151083	81	1.9	82	93	4	263	34	17	15	32	1.91
3156088--3156497	130	3.2	128	81	7	413	32	17	20	29	1.96
3158719--3158879	80	2.0	80	97	0	304	36	8	13	41	1.75
3159719--3159796	32	2.5	30	82	14	86	43	0	0	56	0.99
3159728--3159786	10	5.5	11	74	13	52	45	0	0	54	0.99
3165251--3165293	22	1.9	22	85	4	59	46	0	9	44	1.35
3168042--3168075	9	3.8	9	92	0	59	58	2	0	38	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3168459--3168591	68	1.9	69	87	1	196	40	4	5	49	1.45
3168725--3168776	26	2.0	26	96	0	95	42	9	3	44	1.55
3172247--3172308	32	1.9	32	90	0	97	12	6	25	54	1.62
3176660--3176698	2	19.5	2	94	0	69	46	0	2	51	1.14
3177720--3177758	2	19.5	2	100	0	78	51	0	0	48	1.00
3186820--3186921	50	2.0	50	98	0	195	28	8	13	49	1.72
3187762--3187835	24	3.1	24	94	0	121	31	5	41	21	1.76
3189268--3189379	27	4.1	27	77	8	111	16	21	22	39	1.92
3195591--3195664	24	3.1	24	94	0	121	31	5	41	21	1.76
3197098--3197205	27	3.9	27	83	7	128	17	23	22	37	1.94
3201426--3201461	18	1.9	19	94	5	65	22	22	5	50	1.70
3201905--3202029	38	3.3	38	88	0	169	32	11	16	39	1.84
3203446--3203533	38	2.3	38	88	0	122	35	11	14	38	1.82
3203521--3203545	13	1.9	13	100	0	50	24	24	16	36	1.94
3203668--3203838	89	1.9	89	80	2	200	22	16	22	38	1.93
3203742--3203838	45	2.2	45	88	1	142	21	20	25	31	1.98
3204802--3204827	11	2.4	11	100	0	52	53	0	0	46	1.00
3214479--3214517	7	5.6	7	93	0	69	17	53	0	28	1.44
3214479--3214524	14	3.3	14	93	0	74	19	50	0	30	1.48
3214479--3214525	21	2.2	21	88	0	67	21	48	0	29	1.50
3222129--3222236	27	4.0	27	97	0	180	35	5	35	24	1.79
3222985--3223223	117	2.0	117	95	0	433	40	9	21	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3224386--3224417	14	2.3	14	94	0	55	21	46	0	31	1.52
3224435--3224476	19	2.2	19	95	0	75	11	23	4	59	1.51
3225237--3225276	20	2.0	22	85	14	59	32	5	15	47	1.66
3234240--3234273	15	2.3	15	89	0	50	76	2	2	17	1.04
3235640--3235685	17	2.8	16	84	15	67	56	4	2	36	1.31
3239718--3239752	18	1.9	18	94	0	61	11	34	34	20	1.88
3239775--3239813	19	2.1	19	90	0	60	28	41	20	10	1.85
3244651--3244683	16	2.0	17	88	5	50	45	3	12	39	1.57
3245937--3246027	35	2.6	35	82	0	101	18	16	31	32	1.93
3248690--3248814	19	6.9	18	78	17	100	36	11	15	36	1.83
3248697--3248814	35	3.3	35	95	3	200	37	11	14	36	1.83
3251069--3251119	25	2.0	25	100	0	102	27	23	13	35	1.93
3253990--3254054	1	65.0	1	78	0	67	89	0	10	0	0.49
3253990--3254054	24	2.8	24	88	9	91	89	0	10	0	0.49
3253992--3254054	22	3.0	21	84	13	92	88	0	11	0	0.50
3255028--3255184	79	2.0	81	89	3	246	29	24	23	22	1.99
3255108--3255252	72	2.0	72	84	9	188	32	24	21	21	1.98
3255263--3256049	206	3.8	206	94	0	1333	30	18	22	28	1.97
3256453--3256570	17	6.6	17	85	7	146	38	11	14	35	1.81
3256453--3256570	35	3.3	35	92	3	182	38	11	14	35	1.81
3271033--3271134	29	3.4	29	70	11	71	25	17	19	37	1.94
3271019--3271137	60	2.0	59	85	4	159	24	18	20	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3271560--3271588	6	4.8	6	100	0	58	34	0	13	51	1.42
3276501--3276534	9	3.8	9	92	0	50	47	14	11	26	1.79
3276498--3276534	18	2.1	18	94	0	65	48	13	10	27	1.75
3276928--3276989	18	3.4	18	78	14	65	22	29	0	48	1.51
3277958--3278121	51	3.1	51	81	12	204	28	20	6	43	1.77
3277997--3278120	57	2.1	58	91	7	198	28	21	5	44	1.75
3289585--3289767	73	2.5	72	78	4	195	35	23	24	16	1.95
3289638--3289787	26	6.0	25	75	12	132	35	23	25	16	1.95
3289585--3289787	25	8.2	26	73	10	142	35	23	25	15	1.94
3294215--3294252	5	7.2	5	94	5	58	18	0	0	81	0.69
3295659--3295712	22	2.4	23	84	6	74	22	24	18	35	1.96
3295641--3295751	23	4.8	22	75	13	91	25	22	18	33	1.97
3297137--3297166	11	2.8	11	95	5	53	83	0	0	16	0.65
3298826--3298906	41	2.0	41	100	0	162	28	14	17	39	1.89
3303944--3304007	30	2.1	31	88	2	94	60	9	3	26	1.42
3304037--3304079	22	2.0	22	85	0	59	60	9	11	18	1.57
3304044--3304084	11	3.7	11	80	0	55	56	9	14	19	1.66
3305797--3305842	21	2.3	21	85	7	60	30	0	2	67	1.03
3315103--3315282	88	2.0	88	96	0	333	32	18	14	35	1.91
3326571--3326648	36	2.2	36	95	2	140	42	8	16	32	1.79
3331570--3331612	12	3.4	12	84	15	52	58	2	0	39	1.11
3332827--3332852	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3339547--3339681	40	3.4	39	83	3	162	11	14	30	43	1.80
3341428--3341491	33	1.9	33	83	0	83	20	20	12	46	1.82
3345810--3345873	32	2.0	32	90	0	101	29	7	25	37	1.84
3351098--3351142	22	2.0	22	95	0	81	24	8	26	40	1.84
3353357--3353391	10	3.5	10	88	11	54	62	5	2	28	1.32
3353339--3353391	20	2.7	20	79	8	54	66	3	5	24	1.31
3353357--3353399	19	2.4	18	85	14	54	65	4	2	27	1.25
3355037--3355120	30	2.8	29	73	8	89	41	4	0	53	1.22
3355130--3355193	24	2.9	23	70	29	59	39	1	0	59	1.07
3355134--3355165	14	2.1	16	88	11	50	37	0	0	62	0.95

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292