genome.fa.s3.2.7.7.80.10.50.1000.146.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  146  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)
44198898--44198952	26	2.1	26	96	0	101	69	7	10	12	1.37
44205856--44205906	23	2.3	23	89	3	86	39	1	5	52	1.37
44212519--44212712	97	2.0	97	83	6	241	39	13	17	30	1.88
44212978--44213321	29	11.8	30	70	13	184	34	4	25	34	1.78
44212950--44213254	59	5.2	58	80	5	296	33	5	25	35	1.79
44212950--44213254	118	2.6	118	85	5	388	33	5	25	35	1.79
44213223--44213317	28	3.3	28	85	2	109	37	5	26	30	1.78
44212973--44213310	59	5.8	57	75	10	233	34	4	26	34	1.78
44220048--44220149	34	2.9	34	77	8	116	45	12	14	27	1.82
44224852--44224968	34	3.4	34	81	4	137	42	16	17	23	1.88
44224876--44224966	16	5.4	16	69	19	51	45	16	14	24	1.84
44224868--44224972	34	3.1	34	83	5	140	43	15	16	24	1.86
44225529--44225618	42	2.1	42	81	4	101	22	34	20	23	1.97
44230540--44230589	25	2.0	25	84	3	66	30	14	4	52	1.59
44243506--44243551	21	2.2	21	88	0	65	32	13	8	45	1.73
44245490--44245817	149	2.2	149	97	1	624	42	7	20	29	1.80
44246904--44246960	25	2.2	27	78	12	66	26	3	3	66	1.24
44248513--44248945	59	7.4	58	83	5	482	32	26	4	36	1.77
44248599--44248920	30	11.0	29	74	18	240	31	28	4	36	1.78
44248514--44248945	29	14.8	30	71	18	231	32	26	4	37	1.77
44258103--44258159	22	2.7	21	77	17	64	8	24	0	66	1.20
44258102--44258155	11	4.9	11	75	8	56	9	25	0	64	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44259766--44259811	3	15.3	3	86	8	67	30	2	0	67	1.03
44260838--44261553	49	14.7	49	72	10	446	37	18	25	18	1.93
44260824--44261405	98	6.0	98	83	2	661	36	17	26	19	1.94
44260883--44261553	147	4.6	148	75	8	550	37	18	25	18	1.93
44261378--44261563	99	1.9	98	87	3	275	38	18	24	18	1.93
44261977--44262056	12	6.7	11	77	9	52	41	0	2	56	1.13
44261993--44262057	12	5.2	12	74	17	53	40	0	1	58	1.07
44262024--44262067	17	2.5	17	89	10	63	34	0	2	63	1.07
44262317--44262361	18	2.4	19	85	3	56	28	46	11	13	1.77
44263995--44264398	29	13.9	28	68	17	177	34	25	5	35	1.78
44264019--44264419	59	6.9	59	81	6	410	33	25	4	35	1.78
44263995--44264420	118	3.7	116	81	7	454	33	25	5	35	1.79
44268156--44268397	41	5.9	41	81	2	227	23	27	17	30	1.97
44268156--44268397	82	3.0	80	79	4	268	23	27	17	30	1.97
44268156--44268381	123	1.8	123	86	1	328	23	27	17	30	1.97
44275316--44275875	162	3.5	162	87	1	757	28	19	18	34	1.95
44279682--44279742	20	3.0	20	85	2	77	39	1	0	59	1.08
44294093--44294136	21	2.0	22	86	4	63	81	0	6	11	0.86
44294094--44294129	16	2.2	17	90	5	56	83	0	5	11	0.80
44301546--44301574	12	2.5	12	94	5	51	6	0	37	55	1.27
44315537--44315575	16	2.4	17	87	12	55	23	0	2	74	0.94
44315861--44315908	22	2.2	22	85	7	62	39	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44316165--44316193	1	29.0	1	100	0	58	0	0	0	100	0.00
44318678--44318985	162	1.9	162	90	1	492	28	20	15	35	1.93
44324955--44325037	42	2.0	42	100	0	166	16	16	10	55	1.69
44326853--44327002	43	3.4	44	86	6	196	18	14	24	44	1.86
44334622--44334687	24	2.7	24	88	6	89	27	12	12	48	1.76
44336938--44336983	19	2.4	19	92	3	74	30	2	0	67	1.03
44348254--44348288	18	1.9	18	88	0	52	42	17	5	34	1.73
44358430--44358543	40	2.8	40	89	0	165	42	21	16	20	1.90
44358555--44358696	41	3.5	41	85	1	187	30	18	30	20	1.96
44358510--44358696	41	4.6	41	80	2	180	35	17	27	19	1.94
44359036--44359233	42	4.7	42	85	0	207	28	18	24	28	1.98
44363209--44363271	23	2.7	23	85	4	83	42	1	3	52	1.27
44363209--44363274	25	2.8	24	86	6	89	43	1	3	51	1.26
44364286--44364333	25	2.0	24	84	12	62	56	8	4	31	1.48
44370969--44371017	21	2.6	18	78	12	53	14	14	0	71	1.15
44374284--44374789	162	3.1	160	82	4	624	27	21	15	35	1.94
44376046--44376584	162	3.3	162	95	0	956	28	20	17	33	1.96
44376046--44376649	324	1.9	322	86	4	867	29	20	17	32	1.96
44386252--44386278	9	3.0	9	100	0	54	66	0	11	22	1.22
44386532--44386728	97	2.0	96	90	5	308	47	12	9	31	1.72
44389899--44390418	162	3.2	162	90	1	765	28	22	14	34	1.94
44397251--44397296	21	2.2	21	88	0	65	32	17	6	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44398474--44398532	24	2.5	24	89	5	86	40	1	5	52	1.33
44406321--44406809	59	8.4	57	80	9	374	32	27	4	35	1.78
44406316--44406804	29	16.8	28	76	12	355	32	26	4	35	1.77
44417907--44417964	22	2.6	22	72	5	55	6	29	0	63	1.20
44418525--44418572	7	6.9	7	78	0	51	20	22	22	33	1.97
44418501--44418572	28	2.6	28	78	8	83	25	23	18	33	1.97
44419614--44419648	9	3.8	9	88	3	52	31	5	0	62	1.18
44425020--44425091	22	3.3	22	80	14	78	6	27	0	65	1.18
44425035--44425066	11	2.6	13	80	19	50	6	28	0	65	1.16
44425628--44425665	14	2.8	14	80	4	51	15	18	26	39	1.91
44426704--44426743	3	13.3	3	84	10	55	30	2	0	67	1.04
44427762--44428579	49	16.7	49	74	9	612	36	18	26	18	1.94
44427749--44428419	98	6.8	98	86	1	885	36	17	26	19	1.94
44429022--44429070	22	2.2	22	88	3	71	38	2	0	59	1.09
44429022--44429070	6	8.7	6	76	13	50	38	2	0	59	1.09
44429039--44429081	16	2.6	16	96	3	77	34	0	2	62	1.08
44430053--44430309	41	6.3	41	84	2	257	22	27	17	32	1.96
44430053--44430310	123	2.1	122	83	2	320	22	27	17	32	1.96
44431132--44431158	9	3.0	9	100	0	54	44	33	11	11	1.75
44438887--44439259	162	2.3	162	86	2	518	27	19	17	35	1.95
44439887--44440473	162	3.6	162	87	1	809	28	19	18	33	1.95
44444351--44444387	9	3.9	10	82	10	51	27	0	0	72	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44444350--44444388	19	2.1	18	90	4	60	30	0	0	69	0.89
44447515--44447564	21	2.4	21	82	0	55	44	16	14	26	1.85
44447526--44447565	21	1.9	21	89	0	62	42	15	17	25	1.88
44451603--44451628	6	4.3	6	100	0	52	15	0	0	84	0.62
44451608--44451665	18	3.5	17	80	15	59	17	5	0	77	0.94
44452356--44452548	105	1.8	105	85	8	277	36	13	24	25	1.93
44453108--44453152	19	2.4	19	81	7	56	37	0	4	57	1.19
44453152--44453181	14	2.1	14	100	0	60	20	6	0	73	1.05
44453953--44453982	16	1.9	16	93	6	53	13	13	3	70	1.30
44453948--44454008	22	2.8	22	85	7	72	13	11	3	72	1.24
44459923--44459961	18	2.2	18	86	9	53	74	2	0	23	0.94
44459885--44459947	30	2.1	30	85	5	83	65	1	3	30	1.18
44459922--44459970	26	2.0	24	88	8	71	73	4	0	22	1.00
44459922--44459987	27	2.5	24	83	11	78	71	4	1	22	1.13
44459922--44459992	26	2.8	23	81	14	70	71	4	1	22	1.11
44466524--44466719	105	1.9	105	86	6	281	32	10	23	33	1.89
44477882--44477925	22	1.9	24	86	9	65	43	2	13	40	1.57
44478129--44478170	21	2.0	21	86	4	59	40	11	7	40	1.69
44479035--44479265	116	2.0	116	94	0	408	32	12	16	38	1.87
44480617--44480719	43	2.4	43	85	0	134	18	17	35	28	1.94
44480653--44480732	43	1.9	43	82	5	101	20	15	32	32	1.93
44495141--44495200	24	2.5	24	89	2	86	40	1	5	53	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44495956--44496001	23	1.9	23	82	8	56	52	6	0	41	1.27
44499478--44499638	58	2.8	58	79	7	175	24	15	11	49	1.77
44499804--44499967	31	5.4	30	74	13	149	45	12	17	25	1.83
44499795--44499940	29	4.9	29	76	18	140	46	11	17	23	1.81
44499795--44499967	60	2.9	59	91	1	256	46	12	17	23	1.81
44500382--44500738	71	5.1	71	85	5	449	33	23	17	25	1.96
44500380--44500738	142	2.5	141	86	4	494	33	23	17	25	1.96
44501141--44501194	26	2.1	26	96	0	99	35	24	14	25	1.94
44505293--44505512	29	7.5	29	76	13	150	31	7	24	36	1.83
44505293--44505561	29	9.0	30	74	11	144	34	7	23	34	1.83

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