genome.fa.s17.2.7.7.80.10.50.1000.11.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: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  11  of  173  ( 20651 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)
3068746--3068826	6	13.0	6	78	7	63	16	62	0	20	1.32
3068860--3068908	3	16.3	3	82	0	53	22	67	0	10	1.20
3068863--3068903	9	4.6	9	87	0	64	21	68	0	9	1.18
3068860--3068897	15	2.5	15	95	0	67	23	68	0	7	1.16
3068860--3068906	18	2.6	18	93	0	76	21	68	0	10	1.20
3068863--3068908	15	3.3	15	79	17	62	21	67	0	10	1.21
3068898--3068936	18	2.2	18	90	0	60	23	46	2	28	1.65
3068965--3069027	12	5.2	12	84	0	72	20	65	1	12	1.35
3068968--3069017	9	5.6	9	87	0	73	20	68	2	10	1.29
3068965--3069022	15	3.9	15	86	0	62	20	67	1	10	1.29
3069121--3069169	3	16.3	3	86	0	53	22	67	2	8	1.28
3069067--3069169	12	8.3	12	70	10	55	21	63	2	12	1.42
3069183--3069218	18	2.0	18	94	0	63	25	38	8	27	1.84
3069226--3069268	3	14.3	3	85	0	50	25	65	0	9	1.22
3069224--3069268	15	3.0	15	93	0	72	24	64	0	11	1.26
3069226--3069268	18	2.4	18	92	0	68	25	65	0	9	1.22
3069352--3069386	3	11.7	3	93	0	61	28	68	0	2	1.04
3069136--3069327	99	1.9	99	83	0	249	26	50	4	18	1.66
3070937--3070981	18	2.4	19	85	10	58	28	0	4	66	1.11
3075101--3075165	21	3.1	21	78	8	69	15	61	3	20	1.47
3075226--3075284	30	2.0	30	86	6	84	18	61	5	15	1.52
3075234--3075284	15	3.2	15	79	15	57	19	62	3	13	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3075301--3075340	18	2.2	18	95	0	71	25	50	5	20	1.68
3075337--3075386	15	3.3	15	77	0	55	18	62	8	12	1.53
3075349--3075400	15	3.3	15	77	15	59	21	65	3	9	1.38
3076761--3076811	25	2.0	25	100	0	102	23	3	23	49	1.67
3079619--3079676	21	2.8	20	76	7	62	15	60	1	22	1.44
3079718--3079774	15	3.5	17	75	18	59	17	61	5	15	1.52
3079843--3079895	18	2.9	18	77	0	61	18	64	7	9	1.47
3079832--3079881	15	3.3	15	74	0	55	16	62	10	12	1.55
3079844--3079895	15	3.3	15	77	15	59	19	65	5	9	1.42
3079706--3079932	114	2.0	114	82	1	276	20	55	7	17	1.65
3084692--3084742	18	2.8	18	90	0	84	31	41	5	21	1.77
3084746--3084801	12	4.7	12	81	0	58	14	67	3	14	1.35
3084878--3084930	18	2.9	18	80	0	70	24	66	1	7	1.28
3084881--3084946	30	2.3	27	87	7	87	24	63	1	10	1.35
3084878--3084933	15	3.7	15	80	0	76	23	66	1	8	1.30
3084878--3084930	3	17.7	3	84	0	61	24	66	1	7	1.28
3085010--3085053	6	7.3	6	81	0	52	13	72	2	11	1.21
3085073--3085125	12	4.4	12	74	9	54	32	37	13	16	1.88
3085073--3085125	24	2.2	24	83	6	63	32	37	13	16	1.88
3089174--3089243	27	2.5	28	84	13	99	47	5	0	47	1.26
3089287--3089363	27	2.8	26	84	7	100	29	29	27	12	1.94
3089295--3089365	27	2.6	27	95	0	124	28	29	28	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3089405--3089523	4	28.0	4	74	20	50	68	0	31	0	0.96
3089397--3089552	27	5.9	27	72	23	86	66	0	32	0	0.96
3089409--3089514	19	5.8	18	71	21	71	66	0	32	0	0.98
3089406--3089462	18	3.1	19	75	12	64	68	0	31	0	0.90
3089410--3089583	32	5.2	31	72	20	113	67	0	31	0	0.95
3089480--3089579	33	3.0	34	80	15	79	67	0	33	0	0.91
3089432--3089537	40	2.6	43	80	10	123	68	0	30	0	0.96
3089410--3089591	67	2.7	67	80	13	203	68	0	31	0	0.94
3089432--3089551	17	7.4	15	66	17	53	70	0	28	0	0.93
3090118--3090147	16	1.9	15	93	6	51	70	0	3	26	1.03
3090320--3090375	27	2.1	27	93	0	94	44	14	32	8	1.76
3095302--3095346	18	2.5	18	85	0	63	17	46	6	28	1.73
3096045--3096080	19	1.9	18	88	5	54	66	8	0	25	1.19
3095641--3096511	438	2.0	437	98	0	1697	42	16	6	34	1.74
3096728--3096767	11	3.7	11	80	6	55	0	32	0	67	0.91
3096849--3096921	27	2.7	27	86	0	110	13	30	28	27	1.94
3096966--3097037	27	2.6	27	87	12	110	45	0	8	45	1.33
3104614--3104652	20	2.0	20	89	0	60	71	7	0	20	1.10
3106120--3106159	21	2.0	21	85	9	57	37	0	12	50	1.41
3106561--3106654	40	2.3	40	94	3	161	44	13	8	32	1.74
3112321--3112381	32	1.9	31	86	3	86	39	13	4	42	1.65
3114987--3115251	85	3.1	85	95	0	458	33	18	20	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3115252--3115321	37	2.0	35	83	8	88	40	17	12	30	1.87
3120995--3121082	41	2.1	42	83	6	108	18	1	35	45	1.57
3120995--3121120	7	18.1	7	69	14	64	19	0	35	44	1.56
3121072--3121120	21	2.3	21	89	6	73	18	0	36	44	1.50
3121579--3121640	20	3.1	20	85	0	79	37	9	8	45	1.67
3121591--3121647	20	2.8	20	86	0	60	35	14	7	43	1.72
3124959--3125001	15	2.9	14	77	12	50	39	4	0	55	1.20
3125424--3125452	14	2.1	14	93	6	51	31	0	6	62	1.22
3127448--3127497	13	3.6	13	77	15	55	78	2	6	14	1.03
3135799--3135823	3	8.3	3	100	0	50	0	32	0	68	0.90
3139714--3139754	20	2.0	20	100	0	82	24	19	26	29	1.98
3160252--3160520	46	5.6	46	90	5	358	34	14	22	28	1.93
3160252--3160557	98	3.3	92	81	14	351	35	14	21	27	1.93
3160312--3160520	52	4.1	51	87	9	293	35	14	22	27	1.93
3160484--3160629	37	4.0	37	93	1	242	36	16	21	24	1.94
3167467--3167529	6	10.2	6	81	10	65	34	1	44	19	1.60
3167511--3167701	60	3.2	59	76	11	219	32	4	49	13	1.61
3167514--3167613	28	3.4	28	69	15	85	32	6	50	12	1.64
3167486--3167701	118	1.8	118	91	2	362	32	4	48	14	1.63
3167738--3168043	31	10.3	31	80	13	358	51	0	9	37	1.40
3167806--3167914	56	1.9	56	92	0	182	47	0	10	41	1.43
3167920--3167966	22	2.1	22	100	0	94	40	0	12	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3167774--3168028	87	3.0	85	92	4	408	49	0	10	39	1.40
3171605--3171647	23	2.0	22	81	9	52	65	2	0	32	1.06
3171889--3171941	21	2.5	21	93	0	88	30	39	9	20	1.84
3175846--3175907	32	2.0	32	81	12	76	33	6	4	54	1.47
3177565--3177664	42	2.4	42	91	3	157	38	12	29	21	1.89
3179301--3179362	31	2.0	30	84	3	79	40	3	9	46	1.53
3179568--3179638	31	2.4	30	76	4	81	43	11	8	36	1.71
3180493--3180554	25	2.5	25	78	17	67	29	1	4	64	1.23
3182799--3182844	3	15.3	3	100	0	92	0	34	0	65	0.93
3195302--3195378	17	4.5	17	69	15	59	36	9	15	38	1.79
3195302--3195392	35	2.6	34	77	3	92	36	9	14	39	1.79
3197547--3197571	13	1.9	13	100	0	50	44	8	0	48	1.32
3197611--3197664	26	2.2	24	83	12	65	29	5	0	64	1.16
3200449--3200540	48	1.9	48	84	0	121	21	21	3	53	1.60
3200712--3200772	28	2.1	31	85	14	85	27	14	6	50	1.68
3209649--3209689	9	4.6	9	81	0	55	53	2	0	43	1.13
3221759--3221847	29	3.0	30	77	6	92	50	12	12	24	1.74
3226842--3226997	41	3.8	41	91	3	226	27	19	30	23	1.98
3226842--3227038	41	4.8	41	85	6	220	28	18	29	23	1.98
3232581--3232689	25	4.4	25	76	0	101	26	23	13	35	1.93
3232581--3232689	50	2.2	50	81	3	121	26	23	13	35	1.93
3235476--3235519	23	1.9	22	82	17	54	38	22	0	38	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3239692--3239737	20	2.3	20	100	0	92	43	13	21	21	1.86
3241374--3241410	18	2.1	18	89	0	56	54	5	5	35	1.47
3244013--3244095	21	3.9	21	81	10	98	34	24	22	18	1.96
3244013--3244095	44	2.0	41	83	7	103	34	24	22	18	1.96
3245282--3245313	16	2.1	16	94	5	57	40	0	0	59	0.97
3245902--3245942	20	2.0	21	86	9	59	58	0	0	41	0.98
3249805--3249848	17	2.7	15	83	13	52	50	0	2	47	1.13
3270077--3270103	3	9.0	3	100	0	54	33	33	0	33	1.58
3277495--3277690	97	2.0	97	95	0	356	32	11	15	41	1.82
3278070--3278113	23	1.9	23	85	0	61	50	0	0	50	1.00

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