genome.fa.s20.2.7.7.80.10.50.1000.9.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: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  9  of  189  ( 22580 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)
3007902--3007973	21	3.4	21	86	3	92	43	18	1	37	1.59
3008836--3008870	6	5.8	6	87	12	54	11	0	2	85	0.69
3009722--3009777	3	18.7	3	100	0	112	33	0	0	66	0.92
3016710--3016903	37	5.0	37	84	9	262	35	14	22	27	1.93
3016674--3016903	74	2.9	78	83	10	279	35	13	22	28	1.93
3016821--3016943	45	2.8	44	90	4	194	33	16	22	27	1.95
3024413--3024561	37	4.0	37	90	0	226	36	14	20	28	1.92
3024524--3024647	46	2.8	46	88	3	182	34	16	20	28	1.94
3025930--3026183	106	2.4	104	85	9	331	41	14	14	29	1.85
3026234--3026742	187	2.6	189	85	9	642	27	15	13	43	1.85
3026422--3026744	104	3.2	103	83	11	434	27	16	13	43	1.85
3030214--3030265	25	2.1	25	100	0	104	34	15	19	30	1.93
3045426--3045477	24	2.2	24	85	0	68	53	9	3	32	1.51
3057972--3058398	209	2.0	209	98	0	818	39	11	15	33	1.83
3059086--3059130	22	2.0	22	86	0	63	13	24	22	40	1.90
3060194--3060488	111	2.6	111	82	7	321	39	23	6	30	1.81
3060249--3060479	91	2.6	88	93	4	376	39	23	6	30	1.79
3060189--3060488	23	13.3	23	71	15	182	39	24	7	29	1.81
3060825--3060908	39	2.1	39	86	4	114	51	7	11	29	1.65
3062896--3063237	148	2.3	146	86	4	494	26	15	11	46	1.80
3062896--3063239	144	2.4	143	86	4	478	26	15	11	46	1.80
3063155--3063336	96	1.9	97	89	1	285	30	17	11	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3063251--3064112	147	6.0	147	88	4	1322	25	17	13	42	1.86
3063007--3063765	282	3.0	245	83	10	833	27	17	12	42	1.85
3063251--3064112	293	3.0	292	90	3	1327	25	17	13	42	1.86
3064513--3064558	22	2.1	22	84	8	58	41	36	0	21	1.54
3064563--3064617	14	3.9	14	78	4	56	40	32	0	27	1.57
3064831--3064861	15	2.1	15	93	0	53	35	45	0	19	1.51
3064821--3064866	22	2.1	22	83	0	56	41	36	0	21	1.54
3064566--3065221	245	2.6	251	91	5	1056	42	24	2	30	1.66
3065051--3065110	21	2.8	22	80	10	61	40	38	0	21	1.54
3065091--3065121	15	2.1	15	93	0	53	35	45	0	19	1.51
3065044--3065126	22	3.8	22	75	3	60	38	38	0	22	1.55
3065366--3065609	113	2.2	113	89	0	362	24	27	21	27	1.99
3065366--3065626	114	2.3	113	87	1	351	25	27	21	26	1.99
3065549--3065697	73	2.1	72	84	3	192	24	25	22	28	1.99
3069363--3069411	22	2.3	21	79	6	62	71	2	2	24	1.07
3080095--3080201	54	2.0	51	91	5	169	17	28	13	41	1.87
3082374--3082411	20	1.9	20	84	10	51	10	13	0	76	1.02
3084456--3084521	20	3.2	20	71	23	64	40	9	1	48	1.44
3084450--3084534	42	2.0	42	95	0	152	42	9	2	45	1.49
3093739--3093793	26	2.2	26	83	3	67	60	3	7	29	1.41
3095552--3095625	9	8.6	9	69	21	52	24	1	2	71	1.07
3096789--3096884	29	3.2	28	77	16	95	42	14	11	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3100500--3100570	31	2.3	31	76	9	72	36	8	9	45	1.68
3101998--3102068	28	2.4	31	74	6	76	71	8	2	16	1.22
3102076--3102114	20	1.9	21	89	5	62	56	5	5	33	1.43
3106611--3106636	11	2.4	11	100	0	52	38	7	0	53	1.30
3106596--3106724	39	3.3	38	81	9	170	32	3	0	64	1.09
3106636--3106667	16	2.0	16	93	0	55	34	0	0	65	0.93
3109955--3109995	16	2.5	17	84	7	50	60	4	19	14	1.51
3116181--3116219	14	2.7	14	80	4	51	25	2	2	69	1.14
3120437--3120547	42	2.7	40	77	14	116	25	19	25	29	1.99
3122012--3122079	5	13.2	5	83	16	86	39	0	0	60	0.97
3122015--3122071	3	21.0	3	74	25	56	38	0	0	61	0.96
3122012--3122073	8	7.8	8	80	20	76	38	0	0	61	0.96
3122088--3122192	45	2.3	44	85	8	140	64	8	26	0	1.22
3122894--3122951	30	1.9	30	89	0	89	41	3	24	31	1.71
3123163--3123194	13	2.5	13	94	0	55	31	0	12	56	1.37
3123288--3123529	50	4.7	50	86	4	297	26	24	29	19	1.99
3123288--3123537	100	2.4	103	88	6	364	26	24	29	20	1.99
3126446--3126622	46	3.8	46	93	0	300	36	9	24	29	1.86
3128660--3128704	20	2.2	20	84	0	63	53	2	0	44	1.13
3129193--3129235	21	2.0	21	86	8	61	34	0	13	51	1.42
3143116--3143265	73	2.0	76	96	3	279	30	27	8	33	1.87
3169392--3169422	16	1.9	16	93	0	53	74	0	6	19	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3174273--3174464	93	2.1	93	87	5	273	34	22	11	31	1.90
3175930--3175964	17	2.1	17	89	10	54	28	0	0	71	0.86
3182587--3182612	6	4.3	6	100	0	52	30	0	0	69	0.89
3186977--3187108	50	2.7	49	75	11	126	53	4	4	37	1.42
3189000--3189024	8	3.1	8	100	0	50	24	0	24	52	1.48
3200896--3200937	16	2.7	16	77	3	50	54	0	30	14	1.40
3200896--3200944	15	3.2	15	77	5	53	53	0	32	14	1.41
3201358--3201433	35	2.2	35	90	2	118	18	6	17	57	1.60
3206687--3206716	15	1.9	16	93	6	53	0	33	3	63	1.11
3209544--3209609	35	1.9	34	84	6	89	45	13	7	33	1.72
3209806--3209841	18	1.9	18	88	5	54	58	2	0	38	1.13
3209809--3209870	18	3.7	18	67	20	53	54	1	0	43	1.09
3209855--3209881	13	2.1	13	100	0	54	44	0	0	55	0.99
3210560--3210587	14	2.0	14	100	0	56	28	0	7	64	1.20
3210580--3210642	19	3.4	17	82	10	63	34	0	3	61	1.12
3210582--3210643	18	3.3	19	82	11	74	32	0	3	64	1.09
3214591--3214639	25	1.9	25	83	4	62	40	0	4	55	1.19
3218243--3218276	18	1.9	18	88	5	52	55	2	0	41	1.15
3222224--3222278	21	2.6	21	79	0	65	32	36	7	23	1.82
3227743--3227812	31	2.2	32	80	14	83	25	15	14	44	1.84
3228948--3228978	14	2.2	14	100	0	62	54	0	0	45	0.99
3230776--3230825	20	2.6	19	80	3	55	36	22	2	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3234524--3234552	14	2.1	14	100	0	58	13	13	13	58	1.63
3241568--3241592	2	12.5	2	100	0	50	0	48	0	52	1.00
3246161--3246220	29	2.1	29	81	6	68	51	3	3	41	1.35
3246800--3246846	22	2.3	20	82	13	60	65	0	2	31	1.04
3246802--3246848	21	2.2	22	88	3	69	70	0	2	27	0.99
3255629--3255673	22	2.2	20	88	8	63	55	2	4	37	1.32
3258093--3258139	21	2.3	20	88	3	67	36	6	6	51	1.53
3258909--3258985	29	2.6	29	79	4	82	49	15	12	22	1.78
3260875--3260908	16	2.1	16	88	0	50	35	2	35	26	1.72
3271262--3271287	2	13.0	2	100	0	52	50	0	50	0	1.00
3278830--3278888	30	2.0	29	86	3	82	59	5	0	35	1.20
3278872--3278922	25	2.1	24	92	3	84	64	0	0	35	0.94
3279114--3279165	18	2.7	20	80	14	63	28	0	5	65	1.16
3279115--3279165	20	2.7	18	85	11	66	29	0	5	64	1.17
3285657--3285725	19	3.3	19	68	24	57	42	8	11	37	1.72
3285650--3285744	45	2.1	45	98	0	181	40	9	9	41	1.70
3285650--3285723	25	3.2	25	62	31	63	40	9	9	40	1.70
3287472--3287538	29	2.3	29	85	12	102	41	5	0	52	1.26
3287606--3287647	18	2.3	18	100	0	84	28	23	30	16	1.96
3287793--3287902	19	5.8	18	76	15	98	39	10	0	50	1.36
3287816--3287902	18	4.7	19	80	4	106	37	11	0	50	1.39
3287807--3287902	37	2.6	37	98	0	183	38	11	0	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3287934--3287992	19	3.2	18	76	13	66	50	0	10	38	1.36
3287934--3287984	18	2.8	17	79	8	57	52	0	9	37	1.34
3288539--3288621	27	3.1	27	89	5	116	18	32	18	31	1.94
3288876--3288944	31	2.3	30	78	9	77	50	2	4	42	1.37
3297342--3297378	9	4.3	9	80	13	51	56	29	0	13	1.37
3300219--3300260	21	2.0	20	82	13	50	40	7	0	52	1.29
3302786--3303054	41	6.6	41	92	0	387	30	21	26	22	1.99
3312468--3312913	44	10.1	44	64	2	178	26	25	20	27	1.99
3312294--3313197	132	6.9	132	92	0	1371	27	25	19	27	1.99
3318941--3318988	21	2.3	21	77	0	51	68	2	4	25	1.18

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