genome.fa.s3.2.7.7.80.10.50.1000.8.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  8  of  171  ( 20472 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)
3411197--3411306	23	4.7	24	80	3	98	30	12	15	41	1.84
3411214--3411307	23	4.0	23	84	2	125	27	12	17	42	1.85
3411193--3411306	47	2.4	47	91	0	183	28	13	15	42	1.85
3411261--3411302	12	3.6	12	77	6	50	23	14	21	40	1.90
3412660--3412714	25	2.2	26	90	3	85	34	0	1	63	1.05
3416856--3416889	2	17.0	2	100	0	68	50	0	50	0	1.00
3418172--3418218	18	2.5	19	75	10	51	44	6	10	38	1.65
3425390--3425464	24	3.1	24	84	0	96	26	9	8	56	1.59
3427323--3427373	24	2.1	24	88	0	75	21	11	9	56	1.63
3427333--3427385	24	2.2	24	86	0	70	24	15	11	49	1.77
3439354--3439387	3	11.3	3	100	0	68	67	0	0	32	0.91
3443485--3443515	6	5.2	6	100	0	62	67	0	32	0	0.91
3445482--3445524	23	1.9	22	90	4	68	27	6	4	60	1.43
3447566--3447595	6	5.0	6	100	0	60	16	50	0	33	1.46
3449028--3449072	21	2.1	21	83	4	54	46	13	6	33	1.69
3449710--3449749	17	2.3	18	84	16	50	57	0	5	37	1.21
3451985--3452085	52	1.9	52	87	0	148	41	10	13	33	1.80
3455455--3455619	60	2.8	60	90	7	280	26	16	42	14	1.87
3468911--3468946	3	12.0	3	87	0	54	61	0	36	2	1.11
3475766--3475819	27	1.9	29	85	7	76	33	5	11	50	1.61
3476042--3476079	19	2.0	20	84	5	51	50	0	2	47	1.15
3482490--3482550	32	1.9	32	96	0	113	22	24	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3486419--3486452	8	4.1	8	88	7	50	47	26	2	23	1.66
3486560--3486597	20	1.9	20	88	0	58	34	18	13	34	1.89
3486672--3486716	19	2.3	20	76	3	56	60	0	0	40	0.97
3509774--3509833	31	2.0	31	90	9	97	31	3	13	51	1.57
3509779--3509868	29	3.1	29	81	12	87	34	3	10	52	1.51
3510060--3510109	18	2.8	17	84	6	55	66	0	2	32	1.03
3510838--3510909	31	2.4	30	77	9	83	40	9	8	41	1.68
3511016--3511083	29	2.4	28	80	7	75	52	8	2	35	1.47
3523897--3524424	278	1.9	277	91	1	869	33	14	14	37	1.86
3525432--3525473	2	21.0	2	90	0	66	45	0	4	50	1.23
3534356--3534383	8	3.5	8	100	0	56	10	25	35	28	1.89
3535614--3535672	28	2.1	28	90	0	91	16	28	18	35	1.93
3545911--3546014	28	3.4	29	80	9	120	47	0	1	50	1.12
3545911--3546021	31	3.7	30	76	9	102	45	0	1	52	1.11
3547589--3547693	52	2.0	52	100	0	210	34	15	11	39	1.83
3581068--3581126	27	2.2	27	87	0	82	37	6	16	38	1.76
3581476--3581527	19	2.7	19	75	16	54	67	1	0	30	1.02
3581527--3581596	22	3.0	22	69	21	54	48	0	5	45	1.26
3583243--3583354	20	5.9	20	68	25	64	48	0	0	50	1.06
3583252--3583306	27	2.0	29	89	7	87	50	0	0	49	1.00
3583268--3583356	27	3.6	25	73	25	91	48	0	0	51	1.00
3583268--3583356	25	3.6	26	72	20	84	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3585684--3585726	23	2.0	23	90	9	72	72	0	2	25	0.97
3585678--3585721	17	2.6	17	85	0	61	68	0	2	29	1.02
3585680--3585740	23	2.6	22	72	23	54	67	0	4	27	1.11
3595315--3595704	195	2.0	195	99	0	771	29	17	18	35	1.94
3599217--3599264	22	2.1	23	88	3	71	62	0	2	35	1.07
3599200--3599300	52	1.9	52	91	0	166	60	3	2	32	1.30
3599268--3599309	21	2.0	21	86	9	59	50	7	0	42	1.30
3600517--3600565	24	2.0	24	88	0	71	51	6	2	40	1.38
3604025--3604093	29	2.3	31	85	7	88	30	7	4	57	1.45
3627907--3627952	21	2.2	21	85	14	60	45	2	0	52	1.13
3627907--3627952	10	4.4	10	81	8	56	45	2	0	52	1.13
3628178--3628221	16	2.6	17	82	10	63	36	0	0	63	0.95
3634235--3634296	24	2.5	23	76	21	63	50	9	0	40	1.35
3634642--3634695	20	2.7	19	75	13	56	64	7	0	27	1.20
3640567--3640630	33	2.0	33	84	3	85	59	12	7	20	1.58
3643558--3643624	32	2.0	35	88	8	104	31	0	1	67	1.00
3644578--3644604	9	3.0	9	100	0	54	22	44	0	33	1.53
3658907--3658936	10	3.0	10	95	0	51	0	13	0	86	0.57
3664167--3664191	3	8.3	3	100	0	50	68	32	0	0	0.90
3668581--3668623	13	3.3	14	81	15	56	32	13	16	37	1.88
3677840--3678081	52	4.7	52	85	0	295	32	23	15	28	1.95
3679585--3679633	20	2.5	20	100	0	98	28	36	8	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3679585--3679653	20	3.5	20	90	4	86	30	34	8	26	1.86
3697450--3697489	15	2.8	14	81	7	53	37	0	2	60	1.11
3697857--3697953	51	1.9	51	91	0	158	49	14	7	28	1.70
3702126--3702194	36	1.9	36	82	2	86	53	7	0	39	1.29
3718136--3718245	27	4.1	24	71	20	76	53	0	0	44	1.13
3723511--3723545	18	1.9	18	88	0	52	42	0	0	57	0.99
3723776--3723846	33	2.2	33	84	0	88	46	9	11	32	1.72
3723788--3723850	33	1.9	33	93	0	108	41	11	14	33	1.81
3734151--3734191	2	20.5	2	100	0	82	0	48	0	51	1.00
3746092--3746192	43	2.4	43	94	1	177	25	16	18	38	1.92
3782869--3782905	12	3.0	13	80	11	51	37	0	0	62	0.96
3798375--3798399	12	2.1	12	100	0	50	48	0	0	52	1.00
3813115--3813260	71	2.1	70	96	1	265	29	8	6	55	1.55
3829177--3829216	16	2.5	15	88	12	53	75	0	0	25	0.81
3829182--3829235	21	2.6	21	76	8	56	70	0	1	27	0.98
3845995--3846680	342	2.0	342	98	0	1336	28	21	21	28	1.99
3862304--3868869	43	154.4	43	77	4	4166	23	17	22	36	1.94
3867420--3867510	40	2.3	40	88	0	137	16	12	25	46	1.81
3867420--3867530	40	2.8	39	82	5	132	17	13	24	45	1.84
3867786--3868389	127	4.8	122	77	6	340	21	13	24	40	1.89
3868816--3868978	42	3.9	40	76	10	139	26	13	20	39	1.90
3869436--3869488	18	2.9	19	83	5	65	26	0	7	66	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3869444--3869495	19	2.8	18	88	5	68	26	0	3	69	1.06
3870478--3870510	6	5.5	6	96	0	57	36	0	45	18	1.49
3871655--3871725	37	1.9	37	100	0	142	32	16	11	39	1.84
3887988--3888015	11	2.5	11	100	0	56	89	0	10	0	0.49
3901509--3901591	30	2.8	29	79	1	94	55	8	4	31	1.51
3901509--3901581	29	2.5	29	82	6	85	56	9	5	28	1.54
3902400--3902621	111	2.0	111	93	1	383	38	12	14	33	1.84
3915216--3915267	22	2.4	22	96	0	95	40	5	0	53	1.25
3918969--3918996	2	14.0	2	100	0	56	50	0	50	0	1.00
3924184--3924225	15	2.5	17	82	17	52	54	2	0	42	1.13
3927150--3927207	30	1.9	30	100	0	116	24	10	17	48	1.78
3931818--3931871	9	6.0	9	84	0	72	0	44	3	51	1.19
3931996--3932063	21	3.2	21	75	8	59	14	42	4	38	1.66
3932030--3932063	15	2.3	15	89	0	50	14	50	0	35	1.44
3941900--3941956	19	2.9	20	72	15	55	61	3	0	35	1.13
3941984--3942028	21	2.2	20	84	4	54	53	0	0	46	1.00
3941994--3942036	21	2.0	21	82	8	52	58	0	0	41	0.98
3942570--3942731	72	2.2	72	98	0	315	32	11	17	38	1.85
3942916--3943238	165	2.0	165	91	1	531	39	14	6	39	1.71
3946558--3946672	10	11.6	10	68	18	71	46	0	1	52	1.11
3946565--3946685	58	2.1	57	89	4	181	47	0	1	51	1.10
3946850--3946901	16	3.2	16	83	0	59	26	23	3	46	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3967013--3967106	46	2.0	46	97	0	179	32	6	7	53	1.54
3967245--3967290	24	2.0	24	86	4	67	47	2	2	47	1.26
3967753--3967851	30	3.3	30	74	2	81	42	17	9	31	1.80
3969450--3969487	2	18.5	2	89	5	58	52	0	2	44	1.14
3970819--3970860	19	2.1	21	86	8	61	40	14	0	45	1.45
3970875--3970910	18	2.0	18	94	0	63	69	2	0	27	1.02
3972490--3972526	18	2.1	18	100	0	74	21	40	0	37	1.54
3976527--3976571	23	1.9	24	86	13	67	51	6	2	40	1.41
3978249--3978293	20	2.3	19	84	3	54	42	20	8	28	1.82
3982665--3982723	28	2.1	28	81	6	66	52	1	0	45	1.10

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