genome.fa.s20.2.7.7.80.10.50.1000.14.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: At_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  14  of  186  ( 22216 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)
4311699--4311770	22	3.1	22	66	24	58	25	29	12	33	1.92
4311674--4311752	25	3.3	25	68	22	78	30	27	8	32	1.87
4322484--4322522	14	2.6	16	88	8	55	41	2	20	35	1.66
4322831--4323017	50	3.7	51	78	12	167	25	18	28	28	1.98
4328207--4328290	43	2.0	43	95	0	150	21	17	27	33	1.96
4344926--4344979	27	2.0	27	85	0	72	38	7	14	38	1.75
4345330--4345413	28	3.2	28	65	25	83	23	16	29	29	1.96
4345225--4345438	49	4.3	50	81	2	243	25	16	27	29	1.97
4355756--4355796	21	2.0	21	81	18	50	21	26	19	31	1.97
4363419--4363654	97	2.4	97	97	0	436	41	13	7	38	1.72
4363692--4363736	23	2.0	23	82	8	56	44	6	2	46	1.42
4368076--4368110	18	2.0	17	88	5	52	45	0	0	54	0.99
4368346--4368381	16	2.2	16	100	0	72	38	36	0	25	1.56
4376721--4376753	6	5.5	6	92	0	57	36	0	15	48	1.45
4376796--4376831	16	2.2	16	95	0	63	38	2	8	50	1.47
4376956--4376998	10	4.2	11	82	14	56	39	0	2	58	1.11
4376954--4376999	21	2.2	21	88	7	67	39	0	2	58	1.10
4391553--4391593	21	2.0	21	81	18	50	21	26	19	31	1.97
4400553--4400723	87	2.0	86	79	6	184	28	15	21	35	1.94
4410084--4410240	46	3.3	46	85	11	165	35	14	22	28	1.92
4410032--4410240	52	4.1	51	85	9	284	34	13	22	28	1.93
4410018--4410241	98	2.3	98	92	0	376	34	14	23	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410202--4410349	37	4.1	37	93	1	246	36	16	22	25	1.94
4436748--4436801	26	2.1	26	100	0	108	61	0	22	16	1.35
4449083--4449129	10	4.6	10	80	15	51	8	6	4	80	1.00
4454132--4454180	26	1.9	25	83	4	62	34	16	22	26	1.95
4454376--4454454	22	3.5	22	75	15	72	75	3	8	11	1.15
4454350--4454429	24	3.6	21	75	11	79	73	7	5	13	1.21
4454376--4454497	50	2.5	47	78	18	124	72	4	11	11	1.24
4455424--4455448	13	1.9	13	100	0	50	68	0	16	16	1.22
4456886--4457040	70	2.2	70	91	0	256	26	22	19	31	1.98
4460295--4460341	13	3.2	16	77	20	57	72	0	14	12	1.13
4460312--4460347	6	5.7	6	90	9	54	72	0	13	13	1.13
4460311--4460350	7	6.0	7	88	11	66	70	0	15	15	1.18
4460312--4460350	13	3.0	13	100	0	78	69	0	15	15	1.20
4461513--4461554	12	3.7	12	78	12	52	78	0	0	21	0.75
4461795--4461949	70	2.2	70	89	0	238	27	21	18	32	1.97
4466455--4466608	70	2.2	70	92	0	254	31	19	22	26	1.97
4466863--4466889	4	6.8	4	100	0	54	22	0	0	77	0.76
4467775--4468758	44	22.7	44	80	9	743	29	22	20	27	1.99
4467819--4468100	85	3.3	85	75	7	307	31	19	20	28	1.97
4467722--4468174	175	2.6	175	91	0	719	30	20	20	27	1.98
4468289--4468747	88	5.2	88	100	0	918	27	25	20	27	1.99
4468289--4468747	132	3.5	132	100	0	918	27	25	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4469822--4469855	2	17.0	2	100	0	68	50	0	50	0	1.00
4478396--4478456	26	2.3	26	80	0	68	45	13	16	24	1.83
4479547--4479769	51	4.4	52	78	6	197	25	14	27	32	1.95
4479581--4479765	101	1.8	102	89	3	293	23	16	26	33	1.95
4479687--4479767	26	3.2	25	67	28	62	22	12	28	37	1.90
4479775--4479901	43	3.0	42	79	14	161	23	18	24	33	1.96
4484595--4484639	12	3.6	13	77	19	51	75	2	2	20	1.01
4495964--4496234	43	6.3	43	79	8	257	30	29	16	22	1.96
4495970--4496206	129	1.8	129	86	5	345	29	29	16	23	1.96
4501414--4501501	7	12.3	7	80	9	52	37	42	0	20	1.52
4501469--4501501	14	2.3	15	94	5	59	27	57	0	15	1.38
4501619--4501655	16	2.3	16	100	0	74	24	0	35	40	1.55
4504699--4504743	14	3.2	14	90	6	65	33	42	0	24	1.55
4504782--4504829	7	7.0	7	81	13	55	37	47	0	14	1.44
4504785--4504826	13	3.2	13	80	16	50	38	47	0	14	1.44
4504700--4504883	81	2.2	84	85	4	257	41	30	0	27	1.56
4504925--4504956	7	4.6	7	92	0	55	34	50	0	15	1.45
4505336--4505445	41	2.7	42	85	4	143	32	25	19	22	1.97
4505501--4505606	40	2.7	39	86	4	151	18	21	22	36	1.95
4514421--4514489	16	4.2	16	92	3	120	24	1	36	37	1.65
4514421--4514489	33	2.1	32	94	2	120	24	1	36	37	1.65
4514470--4514560	45	2.0	45	85	2	121	27	6	28	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4514725--4514759	18	2.0	17	88	5	52	54	0	0	45	0.99
4514612--4514928	157	2.0	157	96	0	580	44	3	4	47	1.40
4514862--4514903	15	2.7	16	82	14	52	52	2	0	45	1.13
4514871--4514912	15	2.9	15	82	10	52	52	0	0	47	1.00
4514682--4514931	76	3.1	82	64	24	215	47	3	3	46	1.34
4514921--4515119	66	3.2	64	68	19	186	49	6	3	40	1.46
4514868--4515156	120	2.4	119	93	2	481	50	4	3	41	1.39
4514663--4515013	157	2.2	158	79	8	353	47	3	3	45	1.39
4515002--4515036	18	2.0	17	88	5	52	54	0	0	45	0.99
4515117--4515155	17	2.5	15	80	15	51	51	0	5	43	1.24
4515122--4515155	17	2.0	17	94	0	59	50	0	5	44	1.26
4515923--4515952	13	2.3	13	100	0	60	60	13	6	20	1.55
4526601--4526626	12	2.2	12	100	0	52	15	30	0	53	1.42
4535644--4535674	14	2.2	14	100	0	62	22	48	12	16	1.80
4555453--4555478	2	13.0	2	100	0	52	50	0	0	50	1.00
4565536--4565573	18	2.0	20	85	10	53	36	2	31	28	1.71
4574435--4574470	18	2.0	18	88	0	54	80	5	0	13	0.88
4574541--4574582	12	3.2	13	81	18	52	76	0	2	21	0.90
4575480--4575504	12	2.1	12	100	0	50	0	8	16	76	1.02
4593525--4593584	27	2.2	28	80	14	72	33	3	0	63	1.11
4595331--4595395	33	1.9	34	87	3	96	26	18	24	30	1.98
4595441--4595594	41	3.7	41	89	4	247	16	18	33	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4596013--4596074	7	8.7	7	83	3	61	20	0	45	33	1.52
4596013--4596060	21	2.3	21	89	7	71	20	0	47	31	1.50
4596013--4596085	14	5.1	14	77	11	67	21	1	43	32	1.61
4596309--4596370	7	8.7	7	83	3	61	20	0	45	33	1.52
4596309--4596356	21	2.3	21	89	7	71	20	0	47	31	1.50
4596309--4596381	14	5.1	14	77	11	67	21	1	43	32	1.61
4595881--4596546	296	2.2	296	98	0	1296	28	2	26	42	1.68
4596589--4596637	22	2.3	21	79	6	55	30	2	30	36	1.69
4602445--4602480	19	2.0	19	89	10	58	8	0	36	55	1.30
4606167--4606345	42	4.2	42	80	4	189	31	28	15	24	1.95
4606163--4606344	85	2.1	84	81	6	197	31	28	16	23	1.96
4606167--4606355	43	4.4	43	82	4	186	31	27	15	25	1.96
4606199--4606355	85	1.8	85	82	5	201	31	29	15	23	1.95
4608433--4608673	115	2.1	115	96	1	448	49	16	16	17	1.80
4610916--4611387	148	3.2	148	92	3	745	31	14	12	40	1.84
4611833--4611920	22	4.2	21	75	12	65	36	36	2	25	1.69
4612186--4612227	21	2.0	20	95	4	75	52	35	0	11	1.38
4612242--4612300	21	2.8	21	81	2	64	44	37	0	18	1.50
4629113--4630493	131	10.6	127	78	7	712	24	22	21	30	1.99
4629221--4630465	87	14.3	86	80	5	954	24	22	21	30	1.99
4629258--4630493	131	9.4	131	82	2	1275	24	23	21	30	1.99
4629222--4630294	218	4.9	218	82	3	1349	24	22	22	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4630488--4630734	44	5.6	45	73	8	177	29	21	19	29	1.97
4630488--4630820	175	1.9	174	82	10	412	28	21	20	29	1.98
4630885--4631040	41	3.6	44	77	10	142	28	23	19	28	1.98
4631322--4631449	69	1.9	67	95	3	229	33	26	13	26	1.93
4638282--4638376	10	9.1	10	76	15	61	36	3	1	58	1.21
4639678--4639734	26	2.2	26	81	6	62	66	14	5	14	1.41
4639692--4639747	26	2.2	26	86	0	76	66	10	8	14	1.45
4639730--4639761	16	2.0	16	93	0	55	81	0	15	3	0.82
4641905--4642032	43	3.0	43	80	8	136	28	24	19	28	1.99
4642919--4642973	28	2.0	28	85	7	76	36	10	0	52	1.37

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