genome.fa.s16.2.7.7.80.10.50.1000.34.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_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   

This is table  34  of  170  ( 20315 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)
9335933--9335964	6	5.3	6	100	0	64	37	46	0	15	1.46
9335925--9335964	18	2.2	18	86	0	53	42	42	0	15	1.46
9335979--9336141	35	4.4	36	67	11	98	46	9	5	38	1.59
9336178--9336227	22	2.2	23	89	3	75	48	2	2	48	1.24
9337264--9337297	17	1.9	17	88	5	50	32	8	0	58	1.29
9338188--9338230	19	2.3	19	92	8	70	46	11	16	25	1.80
9339318--9339355	20	2.0	20	85	10	53	44	0	2	52	1.14
9339547--9339588	16	2.6	16	92	0	66	42	7	2	47	1.43
9339562--9339617	23	2.5	23	82	2	69	44	1	1	51	1.22
9340857--9340899	22	1.9	22	85	4	59	48	2	13	34	1.56
9342698--9342735	20	1.9	20	94	0	67	21	15	23	39	1.92
9344881--9344914	14	2.4	14	90	0	50	29	0	23	47	1.52
9344889--9344915	14	1.9	14	100	0	54	29	0	25	44	1.54
9344978--9345011	14	2.3	15	90	5	52	35	0	29	35	1.58
9348943--9348985	13	3.3	13	80	0	50	55	4	2	37	1.33
9350109--9350245	43	3.2	43	85	0	166	26	18	29	25	1.98
9367745--9367789	20	2.2	20	84	4	54	35	0	2	62	1.08
9369146--9369219	36	2.1	36	100	0	148	47	13	8	31	1.72
9372160--9372217	27	2.1	27	83	0	71	20	37	25	15	1.92
9374648--9374703	19	2.7	20	76	21	53	44	16	1	37	1.58
9385682--9385735	20	2.7	20	82	0	63	44	7	11	37	1.68
9391394--9391423	16	1.9	16	93	6	53	50	20	0	30	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9395562--9395608	24	2.1	24	84	11	64	27	10	21	40	1.86
9402414--9402556	43	3.4	41	77	6	108	30	22	16	30	1.96
9404098--9404195	27	3.5	28	88	5	128	32	28	13	25	1.93
9412374--9412471	27	3.5	28	88	5	128	32	28	13	25	1.93
9425094--9425137	19	2.4	17	82	17	61	75	0	25	0	0.81
9432386--9432438	25	2.1	25	89	6	81	41	9	13	35	1.76
9432996--9433094	45	2.2	45	87	5	137	21	5	20	53	1.64
9433909--9434021	56	2.0	56	89	0	172	26	8	13	51	1.70
9438118--9438159	15	2.7	16	82	14	52	52	2	0	45	1.13
9438127--9438168	15	2.9	15	82	10	52	52	0	0	47	1.00
9438233--9438279	16	3.0	16	78	12	53	51	2	0	46	1.13
9438353--9438408	15	3.7	15	83	9	62	51	1	0	46	1.11
9438468--9438514	16	3.0	16	78	12	53	51	2	0	46	1.13
9438709--9438754	16	2.9	16	78	12	51	52	2	0	45	1.13
9438709--9438763	15	3.7	15	79	13	53	52	1	0	45	1.11
9438116--9438867	120	6.3	120	95	2	1309	49	5	2	42	1.37
9440023--9440074	25	2.1	25	100	0	104	42	15	26	15	1.87
9440175--9440445	137	2.0	138	91	2	438	46	14	13	25	1.81
9443830--9443896	32	2.1	32	83	10	84	55	4	26	13	1.57
9447970--9448016	20	2.3	20	96	0	85	25	29	31	12	1.93
9452449--9452496	20	2.4	20	92	0	78	29	29	29	12	1.93
9453374--9453412	20	1.9	21	89	5	62	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9454033--9454089	21	2.6	22	86	8	73	31	1	3	63	1.22
9459395--9459472	37	2.1	37	100	0	156	30	20	16	32	1.95
9460176--9460214	5	7.6	5	86	11	53	41	0	2	56	1.13
9468041--9468079	5	7.6	5	85	5	51	76	15	5	2	1.06
9468264--9468335	30	2.4	30	83	0	90	31	12	26	29	1.93
9468657--9468690	9	3.8	9	92	0	50	47	14	11	26	1.79
9468654--9468690	18	2.1	18	94	0	65	48	13	10	27	1.75
9468704--9468750	22	2.0	23	84	8	60	19	25	0	55	1.43
9469320--9469357	19	2.0	19	100	0	76	31	10	26	31	1.90
9471764--9471796	6	5.5	6	100	0	66	69	30	0	0	0.88
9473123--9473237	56	2.1	56	100	0	230	35	13	20	29	1.92
9477228--9477295	24	2.8	24	79	0	64	26	16	30	26	1.96
9479308--9479370	22	2.9	23	75	15	55	49	1	6	42	1.37
9484821--9484859	5	7.6	5	85	5	51	76	15	5	2	1.06
9485044--9485115	30	2.4	30	83	0	90	31	12	26	29	1.93
9485436--9485469	9	3.8	9	92	0	50	47	14	11	26	1.79
9485433--9485469	18	2.1	18	94	0	65	48	13	10	27	1.75
9485483--9485528	21	2.1	22	84	8	58	17	28	0	54	1.43
9486100--9486138	19	2.1	19	100	0	78	30	10	28	30	1.90
9488548--9488580	6	5.5	6	100	0	66	69	30	0	0	0.88
9489908--9490022	56	2.1	56	100	0	230	35	13	20	29	1.92
9494010--9494077	24	2.8	24	79	0	64	26	16	30	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9496089--9496151	22	2.9	23	75	15	55	49	1	6	42	1.37
9501022--9501446	44	9.7	44	67	14	207	31	17	20	30	1.96
9501007--9501552	175	3.1	175	91	1	884	32	17	20	29	1.96
9503353--9503393	17	2.5	16	84	7	55	43	4	0	51	1.23
9503389--9503429	21	1.9	22	85	5	57	36	9	7	46	1.65
9505381--9505466	43	2.0	43	86	8	122	54	2	22	20	1.56
9510416--9510693	138	2.0	138	91	0	448	44	16	12	26	1.83
9513800--9513830	14	2.2	14	100	0	62	32	16	32	19	1.94
9520260--9520326	30	2.2	30	89	0	98	19	28	31	20	1.97
9525277--9525371	28	3.4	27	78	15	113	40	9	28	22	1.85
9527997--9528110	33	3.5	33	83	10	146	17	23	14	43	1.86
9528004--9528132	66	2.0	65	85	10	174	20	23	14	41	1.90
9528245--9528374	51	2.5	51	79	7	122	24	26	11	37	1.89
9538123--9538186	30	2.1	30	94	0	110	42	3	29	25	1.70
9545720--9545797	16	4.6	16	71	16	50	75	5	0	19	0.98
9545720--9545788	6	11.5	6	75	14	54	75	4	0	20	0.97
9547253--9547284	16	2.1	16	94	5	57	71	0	15	12	1.14
9547452--9547490	18	2.2	18	86	4	53	69	0	12	17	1.19
9547510--9547556	23	2.0	23	84	8	60	68	6	2	23	1.24
9555351--9555380	15	2.0	15	100	0	60	26	13	6	53	1.64
9555542--9555586	8	5.6	8	84	7	56	26	2	0	71	0.98
9556649--9556688	13	3.1	13	79	13	55	35	25	7	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9559095--9559160	33	2.1	30	83	10	80	27	15	7	50	1.71
9559244--9559307	27	2.4	27	89	2	94	53	6	1	39	1.36
9568937--9568982	17	2.5	19	83	13	53	28	0	4	67	1.10
9568934--9569009	24	3.3	23	79	15	77	28	2	2	65	1.19
9569096--9569135	19	2.1	19	86	9	55	25	0	2	72	0.97
9569096--9569135	9	4.2	10	82	17	50	25	0	2	72	0.97
9569534--9569692	9	16.0	9	69	20	70	65	1	3	29	1.18
9569554--9569686	10	12.9	10	66	20	60	63	0	3	31	1.17
9569536--9569651	43	2.9	39	78	11	110	66	1	5	26	1.22
9569534--9569686	21	7.6	19	69	20	89	64	1	3	30	1.19
9569778--9569816	17	2.3	17	86	8	53	43	0	2	53	1.14
9573000--9573032	13	2.4	14	95	5	59	54	15	3	27	1.55
9574834--9574918	20	4.2	20	81	3	82	40	5	8	45	1.58
9575466--9575637	92	1.9	92	93	0	299	40	20	10	28	1.85
9580144--9580168	12	2.1	12	100	0	50	8	24	0	68	1.16
9580133--9580193	27	2.3	27	80	5	70	4	31	1	62	1.26
9594319--9594345	14	1.9	14	100	0	54	14	25	22	37	1.93
9595719--9595788	28	2.5	28	78	0	86	27	17	20	35	1.94
9597826--9597937	51	2.2	50	87	3	161	29	34	19	16	1.93
9601070--9601141	32	2.2	32	92	4	119	36	0	8	55	1.30
9601065--9601141	10	7.3	10	77	11	64	36	0	9	54	1.32
9628603--9628674	32	2.2	32	92	4	119	34	1	8	55	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9628598--9628674	10	7.3	10	76	11	64	33	1	10	54	1.43
9631970--9632082	37	3.1	37	61	16	92	32	10	20	36	1.87
9631970--9632150	71	2.5	71	94	0	308	33	12	20	33	1.90
9634818--9634868	20	2.5	21	81	15	54	43	5	1	49	1.38
9638284--9638325	19	2.0	21	86	13	61	59	0	0	40	0.97
9639429--9639488	22	2.7	22	97	0	111	30	5	16	48	1.67
9641627--9641689	30	2.1	30	87	0	90	25	4	14	55	1.58
9647943--9648001	17	3.4	17	71	17	57	37	1	3	57	1.25
9648502--9648556	23	2.4	22	77	17	58	47	3	7	41	1.49
9653755--9653815	29	2.1	29	87	0	86	22	31	26	19	1.98

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