genome.fa.s23.2.7.7.80.10.50.1000.8.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_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   

This is table  8  of  218  ( 26060 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)
2975340--2975454	60	1.9	59	98	1	221	50	14	11	23	1.75
2975497--2975562	31	2.1	31	91	0	105	34	7	10	46	1.67
2985866--2985929	27	2.4	27	92	2	103	39	4	4	51	1.44
2986008--2986076	32	2.0	32	86	10	93	46	5	15	31	1.70
3007656--3007697	14	2.8	15	75	10	50	33	0	9	57	1.31
3019274--3019320	24	2.0	24	86	0	67	8	34	0	57	1.29
3019923--3019955	16	2.1	16	100	0	66	63	0	24	12	1.28
3020055--3020141	31	2.8	31	75	5	86	37	3	14	43	1.63
3023268--3023330	33	1.9	33	96	0	117	31	11	14	42	1.80
3032390--3032521	64	2.0	66	81	11	157	46	4	12	36	1.63
3041517--3041788	104	2.7	103	87	7	362	54	16	1	28	1.50
3041506--3041788	100	2.8	99	83	10	346	54	16	1	28	1.49
3041983--3042097	60	1.9	60	94	0	203	53	11	0	34	1.43
3042425--3042512	26	3.3	26	85	3	113	15	15	59	9	1.61
3042646--3042696	25	2.1	24	85	3	66	58	0	1	39	1.09
3058266--3058297	15	2.0	17	88	11	50	59	0	6	34	1.23
3060165--3060294	65	2.0	65	96	0	242	47	26	16	10	1.77
3065668--3065692	11	2.3	11	100	0	50	28	32	8	32	1.86
3080889--3080958	11	6.4	11	72	6	52	21	7	2	68	1.27
3085856--3085889	15	2.2	16	89	5	52	67	5	0	26	1.13
3095048--3095142	43	2.2	43	92	1	156	43	4	4	48	1.41
3098528--3098592	27	2.4	27	92	2	103	38	12	16	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3108143--3108180	20	1.9	20	89	10	60	68	0	5	26	1.11
3111993--3112118	42	3.0	41	83	4	153	19	19	31	29	1.96
3112045--3112133	42	2.1	42	82	0	106	20	17	30	31	1.96
3117442--3117484	23	1.9	22	90	4	68	72	2	0	25	0.97
3120078--3120122	22	2.0	24	82	8	58	40	2	2	55	1.24
3120299--3120335	19	1.9	20	94	5	67	70	8	0	21	1.13
3124051--3124129	33	2.4	33	93	0	131	48	8	17	25	1.76
3127287--3127374	43	2.0	43	100	0	176	27	18	13	40	1.88
3129684--3129991	110	2.8	110	88	3	428	34	19	15	30	1.93
3130877--3130939	9	6.3	9	73	20	54	68	1	3	26	1.14
3130877--3130933	19	2.9	20	84	7	64	66	1	3	28	1.18
3132308--3132552	44	5.6	44	69	12	164	25	24	20	30	1.98
3132521--3133074	44	12.7	42	72	11	311	26	22	21	29	1.99
3132476--3132765	130	2.2	131	79	5	311	27	23	20	28	1.99
3132524--3133081	218	2.6	218	95	0	1019	27	22	21	29	1.99
3132521--3133073	87	6.4	85	72	10	257	26	22	21	29	1.99
3135226--3135415	18	10.6	18	68	16	65	12	12	4	70	1.31
3135351--3135408	6	9.7	6	94	0	71	15	10	6	67	1.41
3138236--3138282	20	2.3	21	78	10	53	61	23	4	10	1.46
3138743--3138788	16	2.9	16	100	0	92	43	4	0	52	1.21
3138743--3138787	8	5.6	8	78	0	54	42	4	0	53	1.21
3139425--3139502	3	25.7	3	75	12	61	26	5	2	65	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3141717--3141806	29	3.0	30	76	12	87	28	14	6	50	1.68
3154789--3154822	3	11.3	3	87	0	50	0	32	35	32	1.58
3154796--3154824	15	1.9	15	100	0	58	0	31	41	27	1.56
3154839--3154878	15	2.7	15	88	0	53	37	2	55	5	1.35
3154854--3154894	21	2.0	21	90	0	64	39	0	58	2	1.11
3161108--3161148	3	13.7	3	94	0	73	31	0	2	65	1.05
3164370--3164407	20	1.9	20	89	10	60	60	21	0	18	1.36
3180502--3181551	210	5.0	210	90	0	1636	30	22	16	31	1.95
3191148--3191207	30	2.0	30	83	3	75	41	0	38	20	1.52
3191345--3191389	22	2.0	23	84	16	60	44	0	33	22	1.53
3196210--3196271	32	2.0	32	87	3	90	38	9	14	37	1.79
3201548--3201682	48	2.8	48	95	0	234	43	11	9	35	1.73
3204879--3206300	743	1.9	742	90	4	2264	40	15	14	29	1.88
3206832--3206896	30	2.2	30	94	0	112	33	10	3	52	1.52
3207314--3207400	42	2.1	42	93	4	149	29	10	26	33	1.90
3207322--3207395	21	3.5	21	66	14	62	22	12	25	39	1.89
3210097--3210175	38	2.1	38	95	0	140	45	18	20	15	1.85
3216405--3218422	23	88.1	23	71	10	1167	39	24	4	30	1.76
3216405--3218437	229	8.9	229	94	0	3435	39	24	4	30	1.76
3220539--3220563	2	12.5	2	100	0	50	52	0	0	48	1.00
3238542--3238604	23	2.8	23	79	9	60	50	0	6	42	1.27
3241755--3241848	23	4.1	23	83	0	125	47	3	25	23	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3246256--3246349	23	4.1	23	85	0	134	47	4	25	22	1.69
3255222--3255297	38	2.0	38	87	5	109	39	10	22	27	1.87
3269102--3269136	17	2.0	18	88	5	54	42	0	5	51	1.25
3269935--3269964	6	5.0	6	100	0	60	33	0	0	66	0.92
3280070--3280096	2	13.5	2	100	0	54	51	0	0	48	1.00
3280303--3280347	23	2.0	23	86	8	65	28	0	2	68	1.01
3282715--3282747	14	2.4	14	90	5	50	57	3	3	36	1.29
3283598--3283635	20	2.0	19	90	10	60	42	0	2	55	1.14
3288189--3288251	34	1.9	33	90	9	103	28	22	23	25	1.99
3288615--3288657	15	2.6	17	78	10	54	16	44	18	20	1.87
3289565--3289611	21	2.2	22	77	11	53	40	4	4	51	1.41
3298364--3298919	276	2.0	276	95	0	1004	34	16	26	22	1.95
3309105--3309171	34	1.9	35	87	3	100	32	8	11	46	1.72
3309120--3309159	20	2.0	20	90	0	62	27	10	12	50	1.72
3315160--3315208	20	2.4	20	80	12	55	71	6	6	16	1.27
3315159--3315207	21	2.3	21	79	6	55	73	6	6	14	1.22
3317019--3317043	13	1.9	13	100	0	50	84	0	0	16	0.63
3318093--3318129	15	2.3	17	86	9	51	40	2	2	54	1.29
3334572--3334635	13	4.9	13	78	0	74	37	20	7	34	1.81
3341452--3341515	33	1.9	33	84	9	85	31	6	6	56	1.49
3368192--3368234	18	2.4	18	88	0	68	16	13	39	30	1.87
3368192--3368234	12	3.6	12	83	0	59	16	13	39	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3368498--3368590	46	2.0	46	100	0	186	23	8	15	52	1.69
3372788--3372820	17	2.0	17	94	5	59	63	0	0	36	0.95
3376693--3376726	17	1.9	18	88	5	52	64	0	2	32	1.08
3383838--3383873	16	2.1	17	90	10	56	27	11	22	38	1.88
3386157--3386206	25	2.0	25	100	0	100	56	16	4	24	1.57
3386202--3386239	18	2.1	18	95	0	67	28	26	0	44	1.54
3392949--3392980	17	1.9	16	93	6	55	68	0	0	31	0.90
3398927--3398967	15	2.5	17	80	11	59	65	0	0	34	0.93
3398927--3398989	22	2.8	22	78	4	63	58	1	0	39	1.07
3400031--3400131	49	2.1	49	98	0	193	19	20	11	47	1.81
3409617--3409654	20	1.9	20	89	10	60	57	5	0	36	1.21
3410930--3410987	29	2.0	29	100	0	116	34	3	20	41	1.69
3413850--3414046	98	2.0	98	95	0	358	37	24	9	28	1.87
3414571--3414626	21	2.6	21	74	2	58	57	0	10	32	1.33
3414606--3414780	50	3.2	55	67	21	125	50	6	9	33	1.61
3414688--3414734	20	2.3	20	81	0	58	55	0	6	38	1.26
3414575--3414779	108	1.9	108	84	9	279	50	5	10	33	1.60
3416050--3416384	44	7.7	44	75	14	284	26	24	20	28	1.99
3416050--3416384	89	3.8	86	76	11	308	26	24	20	28	1.99
3416055--3416502	217	2.1	216	91	1	727	27	23	21	27	1.99
3416044--3416502	44	10.6	44	72	12	256	27	24	20	27	1.99
3416497--3417106	132	4.6	132	92	1	990	29	23	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3420703--3420748	24	1.9	24	90	0	74	13	23	17	45	1.83
3422349--3422545	98	2.0	98	97	0	376	37	24	9	27	1.87
3423074--3423276	108	1.9	110	86	3	293	48	5	11	33	1.63
3424828--3424883	27	2.1	27	89	0	85	51	3	7	37	1.47
3428226--3428272	21	2.2	22	92	3	78	21	19	38	21	1.94
3433593--3433629	17	2.1	19	85	10	51	37	0	0	62	0.96
3433553--3433635	19	4.3	20	68	17	61	42	0	2	55	1.13
3436979--3437015	17	2.1	19	85	10	51	2	45	0	51	1.15
3436979--3437023	19	2.3	20	84	3	56	2	44	0	53	1.13
3443905--3443967	20	3.3	18	81	14	65	65	1	1	31	1.12

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