genome.fa.s20.2.7.7.80.10.50.1000.123.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  123  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)
34969891--34969923	15	2.1	16	88	5	50	24	6	6	63	1.40
34979650--34979722	38	1.9	37	86	8	103	31	21	1	45	1.61
34979857--34979932	23	3.3	23	96	0	143	31	26	21	21	1.98
34980380--34980438	30	2.0	30	86	0	82	28	25	8	37	1.85
34981418--34981452	14	2.5	14	86	13	54	51	8	0	40	1.33
34983449--34983567	61	2.0	61	88	3	177	51	5	3	40	1.40
34983449--34983551	31	3.4	30	73	11	93	52	4	3	38	1.41
34988424--34988448	12	2.1	12	100	0	50	24	36	24	16	1.94
34988610--34988649	9	4.4	9	93	0	62	40	25	10	25	1.86
35003075--35003150	9	8.4	9	89	0	116	26	11	19	42	1.86
35005619--35005652	15	2.2	16	89	5	52	76	11	0	11	1.02
35009413--35009452	14	2.9	14	88	0	62	32	5	17	45	1.70
35009436--35009495	20	3.0	20	95	0	102	26	10	13	50	1.73
35009415--35009511	20	6.0	15	78	15	56	30	8	15	45	1.75
35009488--35009572	32	2.6	31	76	9	89	25	10	18	44	1.82
35009605--35009632	14	2.0	14	100	0	56	42	0	0	57	0.99
35009821--35009963	71	2.0	72	94	1	252	43	20	8	27	1.81
35010907--35010982	27	2.8	28	82	4	93	53	22	2	21	1.57
35012469--35012501	15	2.1	16	94	5	59	60	6	18	15	1.54
35015057--35015124	25	2.6	27	84	15	97	38	8	27	25	1.85
35023198--35023229	15	2.1	15	94	0	55	56	0	0	43	0.99
35024984--35025013	6	4.8	6	92	8	51	70	13	0	16	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35025858--35025951	46	2.0	46	100	0	188	22	23	19	35	1.96
35029986--35030137	76	2.0	76	94	1	270	42	11	28	17	1.84
35042316--35042359	17	2.4	19	85	14	58	36	0	4	59	1.18
35047735--35047812	36	2.2	35	81	2	84	37	0	20	42	1.52
35047830--35047905	34	2.3	33	84	8	111	40	0	10	48	1.38
35047977--35048234	126	2.0	126	91	2	412	36	17	16	29	1.92
35051702--35051737	18	2.0	18	88	0	54	38	8	25	27	1.84
35053301--35053339	20	2.0	20	85	5	53	64	0	2	33	1.08
35053274--35053325	25	2.1	24	82	10	61	65	1	1	30	1.14
35053502--35053565	29	2.2	30	91	2	103	39	3	32	25	1.71
35054072--35054117	23	2.0	23	100	0	92	47	4	13	34	1.62
35058056--35058100	22	2.0	22	100	0	90	37	4	26	31	1.76
35064326--35064413	35	2.5	35	83	7	106	25	17	18	39	1.91
35064315--35064413	37	2.8	36	80	7	112	24	16	18	41	1.89
35070339--35070400	30	2.1	29	84	3	79	27	9	20	41	1.84
35071857--35071899	22	2.0	22	81	9	52	48	11	18	20	1.79
35076422--35076497	40	1.9	40	94	0	134	31	1	17	50	1.54
35086668--35086706	19	2.0	20	90	5	62	64	0	30	5	1.15
35094620--35094649	14	2.1	14	93	0	51	60	0	0	40	0.97
35099046--35099079	17	2.0	17	88	0	50	52	0	5	41	1.25
35099918--35100121	41	5.0	41	87	0	282	22	26	22	28	1.99
35099922--35100121	82	2.4	83	90	3	316	22	26	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35099922--35100151	41	5.6	41	83	5	216	22	25	21	30	1.99
35099927--35100151	123	1.8	123	84	7	314	22	25	22	29	1.99
35099922--35100162	82	2.9	81	84	7	240	22	25	22	29	1.99
35102495--35102555	19	3.2	19	85	0	50	19	27	27	24	1.99
35102505--35102568	19	3.4	19	82	4	76	17	25	29	28	1.97
35103018--35103067	24	2.1	24	92	0	82	50	16	4	30	1.63
35107583--35107607	9	2.8	9	100	0	50	60	28	0	12	1.32
35108450--35110806	589	4.0	589	99	0	4705	33	12	21	32	1.91
35116532--35116586	22	2.6	22	83	11	62	23	5	1	69	1.19
35117064--35117110	24	2.0	24	83	8	60	46	0	2	51	1.13
35117054--35117110	20	3.1	19	70	10	55	43	0	1	54	1.10
35117121--35117181	31	2.0	29	81	6	68	55	1	3	39	1.26
35117215--35117251	19	1.9	18	89	10	56	64	0	0	35	0.94
35117212--35117259	18	2.5	20	80	10	64	56	0	0	43	0.99
35117102--35117283	89	2.0	93	82	8	230	48	4	2	44	1.34
35117709--35117733	13	1.9	13	100	0	50	64	4	0	32	1.12
35119149--35119177	9	3.2	9	100	0	58	41	0	0	58	0.98
35122028--35122062	17	1.9	19	88	11	56	65	11	2	20	1.37
35122128--35122176	20	2.5	19	80	6	53	67	12	10	10	1.43
35122134--35122177	20	2.2	20	87	0	61	68	11	11	9	1.40
35123007--35123043	19	1.9	19	88	0	56	40	0	5	54	1.24
35128180--35128308	33	3.6	33	72	18	105	37	27	17	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35128136--35128310	76	2.3	76	91	1	271	33	28	18	18	1.95
35129613--35129694	36	2.3	36	91	0	128	14	41	3	40	1.64
35129613--35129694	18	4.6	18	87	3	112	14	41	3	40	1.64
35133866--35133911	24	1.9	24	86	8	67	47	13	4	34	1.62
35133878--35133929	24	2.2	24	85	0	68	50	11	1	36	1.50
35136605--35136649	22	2.0	22	91	0	72	42	2	33	22	1.66
35139027--35139076	25	2.0	26	88	4	75	66	12	10	12	1.46
35143017--35143071	12	4.6	12	76	13	51	12	21	0	65	1.26
35143053--35143090	17	2.2	18	85	4	51	10	23	2	63	1.39
35146767--35146819	21	2.5	20	78	12	52	11	20	1	66	1.33
35151254--35151281	6	4.7	6	100	0	56	0	67	0	32	0.91
35153819--35153869	22	2.2	24	77	22	56	35	0	3	60	1.15
35154027--35154093	34	1.9	35	87	3	100	46	13	8	31	1.74
35154062--35154101	14	2.9	14	84	0	53	42	17	7	32	1.77
35162789--35162931	41	3.5	41	87	0	196	30	20	18	30	1.97
35165881--35166085	75	2.7	75	84	0	266	30	17	20	31	1.96
35176205--35176257	27	2.0	27	92	3	90	33	30	22	13	1.92
35176414--35176466	27	2.0	27	92	3	90	30	33	22	13	1.92
35176174--35176544	105	3.6	103	92	2	591	30	29	19	19	1.97
35176873--35176936	30	2.2	29	81	10	76	29	28	6	35	1.82
35176880--35176936	30	1.9	30	85	3	80	29	24	7	38	1.82
35185084--35185117	14	2.4	14	85	0	50	38	2	0	58	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35197208--35197277	25	2.8	25	72	8	70	30	22	20	27	1.98
35198691--35198928	120	2.0	120	94	0	413	23	14	19	42	1.88
35201639--35201737	44	2.3	44	84	6	125	46	5	1	47	1.31
35206353--35206379	10	2.7	10	100	0	54	22	0	22	55	1.44
35208099--35208123	12	2.1	12	100	0	50	52	8	24	16	1.70
35214163--35214218	24	2.3	25	84	12	80	16	33	0	50	1.45
35215464--35215495	13	2.4	13	94	5	55	15	21	21	40	1.91
35218957--35219028	35	2.1	35	97	0	135	40	13	23	22	1.90
35228055--35228274	47	4.9	43	67	16	131	47	3	3	46	1.34
35227976--35228274	91	3.3	91	95	0	508	46	3	3	46	1.35
35228160--35228351	101	2.0	92	76	15	176	45	3	2	47	1.34
35228291--35228489	59	3.3	58	67	12	145	41	3	4	50	1.38
35228290--35228553	120	2.2	120	94	1	458	42	3	4	49	1.39
35228411--35228445	18	2.0	17	88	5	52	45	0	0	54	0.99
35228364--35228547	66	3.1	59	66	20	155	42	2	6	48	1.43
35228471--35228644	78	2.2	78	93	1	305	40	2	8	48	1.45
35228622--35228663	15	2.7	16	82	14	52	45	0	2	52	1.13
35228613--35228654	15	2.9	15	82	10	52	47	0	0	52	1.00
35228877--35228925	16	3.1	16	87	0	71	22	30	4	42	1.72
35237592--35237624	2	16.5	2	100	0	66	0	48	0	51	1.00
35244178--35244208	16	1.9	16	93	0	53	45	22	22	9	1.81
35246189--35246282	25	3.8	25	69	10	77	25	19	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35248498--35248554	25	2.3	25	90	0	87	21	19	22	36	1.95
35249863--35249905	21	2.0	21	90	0	68	11	30	20	37	1.89
35257080--35257139	30	2.0	31	86	3	86	40	0	40	20	1.52
35257720--35257766	18	2.6	18	93	0	85	34	21	10	34	1.88
35262460--35262502	21	2.0	21	95	0	77	13	30	18	37	1.90
35263730--35264113	50	7.7	50	82	2	380	21	17	26	35	1.95
35263730--35264061	25	13.3	25	67	3	157	20	17	25	36	1.94
35266434--35266622	40	4.7	38	80	8	198	34	18	3	43	1.68
35266434--35266631	80	2.5	79	88	0	288	35	18	3	42	1.67
35266434--35266565	13	9.9	13	70	14	90	34	20	3	41	1.68

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