genome.fa.s20.2.7.7.80.10.50.1000.107.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  107  of  199  ( 23844 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)
30279684--30279714	16	1.9	16	93	0	53	48	3	9	38	1.52
30279814--30279852	18	2.0	19	85	14	53	69	5	7	17	1.32
30290622--30290690	19	3.6	19	78	14	63	31	0	2	65	1.08
30290622--30290676	20	2.8	20	83	8	69	32	0	1	65	1.03
30290619--30290683	20	3.3	20	71	25	59	33	0	1	64	1.03
30290574--30290692	9	12.8	9	74	15	82	31	0	2	65	1.12
30290672--30290732	22	2.8	22	82	5	70	34	3	6	55	1.42
30293968--30294039	29	2.4	29	80	8	74	37	12	2	47	1.56
30294461--30294598	71	1.9	71	92	2	233	31	21	16	30	1.96
30294915--30294959	22	2.0	22	87	8	65	44	11	6	37	1.66
30302664--30302703	3	13.3	3	100	0	80	67	0	0	32	0.91
30303630--30303666	17	2.2	16	90	4	56	0	21	5	72	1.04
30305706--30305746	8	5.4	8	88	8	59	65	0	0	34	0.93
30305705--30305747	15	3.0	14	84	15	61	65	0	0	34	0.93
30306940--30306971	15	2.1	15	100	0	64	21	12	18	46	1.82
30307465--30307534	31	2.3	31	92	2	115	42	17	14	25	1.86
30315516--30315548	15	2.2	15	94	0	57	48	6	21	24	1.72
30315849--30315879	16	2.0	15	93	6	53	64	0	0	35	0.94
30315849--30315880	9	3.8	9	84	16	50	62	0	0	37	0.95
30315854--30315897	22	2.0	22	82	8	54	56	0	0	43	0.99
30315853--30315913	20	3.0	22	79	13	60	52	0	0	47	1.00
30315924--30315957	15	2.1	16	89	10	52	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30318731--30318786	22	2.5	22	85	0	76	41	19	23	16	1.90
30319110--30319134	12	2.1	12	100	0	50	28	16	8	48	1.74
30322585--30322632	21	2.3	20	75	10	51	79	4	8	8	1.06
30324089--30324161	3	24.3	3	73	13	53	65	2	5	26	1.27
30324119--30324152	13	2.6	13	90	9	52	70	0	5	23	1.09
30324098--30324154	16	3.8	16	77	15	59	66	1	7	24	1.26
30324220--30324307	24	3.8	22	73	21	65	63	3	6	26	1.35
30324267--30324335	3	22.7	3	72	19	54	68	1	4	26	1.17
30324267--30324338	12	5.9	12	75	15	67	68	1	4	26	1.16
30327982--30328034	11	4.6	11	76	15	54	60	5	5	28	1.42
30331209--30331266	23	2.4	24	80	5	64	70	1	1	25	1.06
30348770--30348840	36	2.0	36	97	0	133	38	19	19	22	1.94
30350400--30350437	20	1.9	20	88	0	58	34	2	2	60	1.24
30350401--30350444	20	2.2	20	83	0	52	34	4	2	59	1.30
30353324--30353381	18	3.2	18	80	4	62	62	1	25	10	1.37
30353369--30353421	23	2.4	22	76	20	56	69	1	18	9	1.25
30358343--30358386	20	2.2	20	84	8	54	27	4	11	56	1.53
30362402--30362486	44	1.9	45	90	7	138	32	7	7	52	1.55
30367607--30367699	9	10.3	9	88	0	132	31	9	24	34	1.88
30367607--30367699	27	3.4	27	92	0	159	31	9	24	34	1.88
30367862--30367886	12	2.1	12	100	0	50	16	24	36	24	1.94
30381159--30381310	27	5.6	27	93	3	241	26	13	28	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30381159--30381310	55	2.8	55	94	0	259	26	13	28	30	1.94
30389870--30389901	15	2.1	15	94	0	55	68	9	6	15	1.36
30390913--30390963	20	2.7	19	82	8	59	15	3	1	78	0.99
30392067--30392105	16	2.5	16	87	4	62	35	5	30	28	1.79
30392087--30392179	45	2.1	44	90	6	143	33	2	26	37	1.69
30392087--30392191	44	2.5	41	77	18	110	33	1	26	38	1.68
30392286--30392414	56	2.3	56	78	9	136	50	4	0	44	1.28
30394461--30395388	474	2.0	475	99	0	1822	34	19	12	33	1.90
30395957--30395999	20	2.2	20	87	4	61	65	6	23	4	1.37
30401401--30401439	6	6.5	6	88	11	62	17	33	0	48	1.48
30401816--30401880	5	13.2	5	75	19	57	40	20	1	38	1.62
30402475--30402521	17	2.8	17	79	20	62	55	6	2	36	1.37
30402781--30402840	30	2.0	31	83	3	77	38	1	40	20	1.62
30406708--30406754	20	2.5	20	86	10	64	46	2	0	51	1.13
30416464--30416494	16	1.9	16	93	0	53	3	12	0	83	0.75
30422402--30422441	6	6.7	6	97	0	62	37	0	62	0	0.95
30427443--30427514	26	2.8	26	85	8	101	44	13	13	27	1.82
30430918--30430958	16	2.5	17	80	11	50	53	4	9	31	1.55
30439866--30439985	31	4.0	29	81	5	114	40	15	10	34	1.80
30439927--30440007	31	2.6	31	96	0	144	43	13	11	32	1.79
30440468--30440565	17	5.8	17	70	19	71	39	2	3	55	1.27
30440537--30440653	61	2.0	58	88	5	171	41	5	2	51	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30443347--30443385	12	3.2	12	85	0	51	53	5	23	17	1.63
30443486--30443520	9	3.9	9	88	0	52	11	20	0	68	1.20
30450186--30450290	28	3.7	28	76	3	102	34	6	11	47	1.66
30451344--30451471	68	1.9	68	96	0	238	33	7	13	46	1.70
30453048--30453097	19	2.6	20	78	18	61	52	2	0	46	1.12
30463668--30463707	20	2.0	20	90	0	62	27	10	12	50	1.72
30463653--30463719	34	1.9	35	87	3	100	32	8	11	46	1.72
30463700--30463788	33	2.7	32	75	5	97	25	7	19	47	1.76
30464045--30464102	26	2.2	26	96	0	107	43	10	12	34	1.76
30466173--30466271	27	3.6	27	70	20	96	51	21	14	13	1.75
30466682--30466712	14	2.2	14	94	0	53	32	19	9	38	1.84
30472383--30472414	12	2.7	12	95	0	55	34	9	6	50	1.60
30472390--30472455	25	2.6	26	79	13	66	39	4	6	50	1.48
30472491--30472525	11	3.3	11	84	8	54	48	0	0	51	1.00
30472494--30472528	10	3.4	10	84	7	52	51	0	0	48	1.00
30474026--30474060	17	2.1	17	88	0	52	40	2	14	42	1.60
30475364--30475412	25	1.9	26	88	12	75	24	2	6	67	1.24
30475360--30475414	19	2.9	19	72	22	53	25	1	7	65	1.28
30477007--30477047	13	3.2	13	86	6	57	19	0	2	78	0.87
30478800--30478848	24	2.0	24	96	0	89	38	4	14	42	1.64
30487025--30487054	13	2.3	13	94	0	51	36	0	10	53	1.35
30487160--30487238	39	2.0	39	97	0	149	24	12	8	54	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30489577--30489741	45	3.7	45	82	4	174	44	11	17	26	1.82
30489619--30489828	45	4.7	45	77	11	178	40	14	20	24	1.89
30490902--30490939	20	1.9	20	89	10	60	28	10	0	60	1.30
30491202--30491321	56	2.2	56	86	1	161	33	8	11	46	1.70
30492825--30492861	9	4.1	9	92	0	65	45	13	10	29	1.77
30492899--30492939	21	2.0	21	85	9	57	24	34	0	41	1.55
30500630--30500714	30	2.8	30	96	0	161	40	7	7	45	1.58
30501413--30501530	55	2.1	55	98	0	227	39	19	15	25	1.90
30515986--30516160	50	3.5	50	76	2	163	24	17	22	36	1.95
30515977--30516158	100	1.8	101	84	3	251	24	17	23	34	1.96
30517041--30517501	44	10.5	44	83	1	548	20	26	21	32	1.98
30517041--30517505	88	5.3	88	92	0	741	20	26	21	32	1.98
30518724--30518767	7	6.0	7	81	7	52	18	13	0	68	1.22
30537036--30537086	15	3.4	14	75	21	50	62	0	0	37	0.95
30538248--30538308	31	2.0	31	96	0	113	31	11	31	26	1.91
30540258--30540293	11	3.2	11	92	4	54	38	0	0	61	0.96
30544968--30545161	86	2.3	84	84	7	250	36	21	7	34	1.81
30545259--30545407	11	15.4	10	65	18	57	62	1	4	32	1.22
30545280--30545341	22	3.0	22	72	13	67	64	0	3	32	1.09
30545295--30545401	30	3.7	27	80	15	108	61	0	3	33	1.20
30545274--30545422	58	2.5	59	77	11	171	63	1	5	30	1.25
30545580--30545640	28	2.2	29	88	5	90	34	0	1	63	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30545602--30545662	20	3.1	20	81	13	74	36	1	0	62	1.05
30545580--30545661	9	8.8	9	74	11	67	35	1	1	62	1.11
30545698--30545861	86	1.9	85	80	6	188	33	6	18	40	1.77
30546469--30546518	17	2.9	17	85	11	59	52	0	0	48	1.00
30546479--30546523	17	2.9	16	87	9	58	46	0	0	53	1.00
30554421--30554450	16	1.9	16	93	6	53	70	0	6	23	1.11
30557663--30558006	51	6.8	49	77	11	286	24	16	27	31	1.96
30557662--30558006	101	3.4	99	79	10	308	24	16	27	31	1.96
30557868--30557900	14	2.5	14	90	9	52	24	9	27	39	1.85
30557661--30558005	151	2.3	152	93	1	584	24	16	27	31	1.96

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