genome.fa.s11.2.7.7.80.10.50.1000.55.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  55  of  143  ( 17057 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)
17773274--17773327	19	2.8	19	78	13	65	70	3	3	22	1.19
17773344--17773396	4	13.0	4	80	11	63	71	1	1	24	1.06
17773344--17773396	17	3.2	16	84	5	63	71	1	1	24	1.06
17778380--17778610	75	3.1	75	96	1	410	34	12	22	29	1.92
17780087--17780190	47	2.2	47	94	1	181	27	13	25	33	1.93
17784339--17784498	80	2.0	80	100	0	320	30	17	21	31	1.96
17790553--17790593	20	2.0	20	90	0	64	51	2	0	46	1.14
17791177--17791215	20	1.9	20	84	5	51	61	7	2	28	1.37
17792345--17792379	18	1.9	18	88	11	54	5	20	5	68	1.31
17793217--17793260	22	2.0	22	82	8	54	47	6	13	31	1.69
17794368--17794400	14	2.3	15	90	10	52	48	6	12	33	1.65
17798860--17799350	53	9.5	53	85	6	623	37	22	14	26	1.92
17806619--17806666	9	5.3	9	76	0	51	25	29	12	33	1.92
17811266--17811339	20	3.8	20	79	13	75	39	1	5	54	1.32
17811281--17811337	19	2.9	19	84	7	71	38	1	3	56	1.27
17811925--17811972	19	2.5	19	100	0	96	39	10	14	35	1.80
17812445--17812505	3	20.3	3	84	15	74	32	1	0	65	1.02
17834043--17834084	20	2.1	20	86	0	57	47	0	7	45	1.30
17835707--17835752	23	2.0	23	100	0	92	21	17	30	30	1.96
17836047--17836071	10	2.5	10	100	0	50	64	0	0	36	0.94
17839958--17840014	19	2.9	19	84	7	71	57	1	1	38	1.19
17840153--17840182	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17843237--17843318	40	2.0	40	97	0	155	29	4	32	32	1.79
17853522--17853555	15	2.3	15	90	5	52	47	35	0	17	1.48
17857429--17857459	5	6.0	5	92	7	53	19	0	3	77	0.90
17857429--17857459	16	2.0	15	93	6	53	19	0	3	77	0.90
17857434--17857789	83	4.4	82	80	8	349	33	11	10	45	1.74
17860894--17860960	21	3.2	21	86	0	89	16	19	26	37	1.93
17861211--17861276	26	2.6	25	78	7	69	33	19	16	30	1.94
17861240--17861303	26	2.5	26	86	0	83	29	21	15	32	1.95
17862794--17862873	28	3.0	27	68	17	78	52	26	6	15	1.66
17864748--17864817	33	2.3	30	82	9	79	44	25	4	25	1.72
17865219--17865341	40	3.0	40	76	13	119	60	15	2	21	1.46
17871398--17871457	28	2.1	28	81	0	66	48	8	8	35	1.63
17872384--17872438	21	2.6	21	91	0	92	47	27	0	25	1.52
17872384--17872495	42	2.7	42	79	8	113	45	31	0	22	1.58
17872871--17872903	17	2.0	17	88	5	50	24	3	0	72	0.98
17872892--17872949	25	2.4	23	81	13	64	29	3	5	62	1.33
17872899--17872948	25	2.0	26	84	11	68	28	4	6	62	1.37
17883163--17883206	14	3.1	14	90	3	61	54	0	45	0	0.99
17884139--17884191	26	2.0	26	100	0	106	45	11	15	28	1.80
17891814--17891899	31	2.9	30	73	18	90	25	19	9	45	1.80
17891836--17891889	28	1.9	28	85	14	76	22	18	9	50	1.75
17891825--17891975	60	2.5	59	78	6	178	25	17	12	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17892147--17892255	31	3.6	30	73	17	91	47	11	15	24	1.79
17892120--17892225	30	3.5	30	72	19	103	48	10	13	28	1.75
17892123--17892312	58	3.2	60	82	4	215	49	11	13	25	1.75
17898134--17898348	108	2.0	108	87	0	313	23	23	14	38	1.92
17900189--17900240	17	2.9	19	78	18	58	44	0	3	51	1.19
17905013--17905039	14	1.9	14	100	0	54	51	0	3	44	1.19
17905012--17905045	14	2.4	14	85	0	50	52	0	2	44	1.16
17905245--17905298	15	3.2	16	75	17	56	46	0	1	51	1.11
17905372--17905449	38	2.0	39	83	11	99	53	0	2	43	1.14
17908781--17908845	29	2.2	29	78	8	69	35	12	9	43	1.74
17910439--17910512	29	2.5	29	78	6	87	21	12	12	54	1.70
17912376--17912418	20	2.3	18	84	11	52	34	6	2	55	1.39
17912709--17912768	22	2.8	20	74	16	50	56	11	3	28	1.51
17914410--17914447	17	2.3	17	86	4	51	47	7	0	44	1.32
17918568--17918928	193	1.9	195	84	2	485	30	17	25	26	1.97
17922491--17922534	20	2.2	20	88	8	63	13	13	2	70	1.26
17922499--17922535	14	2.7	14	88	12	51	13	13	2	70	1.28
17924836--17924889	18	3.1	18	75	5	56	22	11	12	53	1.70
17929992--17930052	32	1.9	32	100	0	122	37	27	16	18	1.92
17932428--17932567	66	2.1	66	97	0	262	60	5	15	18	1.55
17936611--17936666	3	18.3	3	81	3	58	28	0	7	64	1.20
17937036--17937516	140	3.4	139	82	9	601	43	2	10	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17937514--17937561	25	2.0	24	83	4	60	54	6	8	31	1.55
17937608--17937657	24	2.1	24	96	0	91	16	20	40	24	1.91
17938788--17938854	11	5.8	12	72	10	59	58	23	7	10	1.57
17938760--17938851	11	8.4	11	69	9	53	58	25	7	8	1.54
17938787--17938851	23	2.8	24	86	6	91	56	24	7	10	1.59
17940368--17940411	22	2.0	22	81	0	52	27	45	13	13	1.81
17940375--17940419	22	2.0	22	91	0	72	26	37	15	20	1.92
17940427--17940499	28	2.6	28	78	6	76	36	20	13	28	1.91
17941194--17941232	18	2.2	18	85	0	51	35	0	30	33	1.58
17941194--17941224	6	5.2	6	96	0	53	29	0	35	35	1.58
17944944--17945390	194	2.3	195	87	2	632	28	19	25	26	1.99
17946087--17946138	21	2.5	21	80	0	59	28	13	25	32	1.93
17951077--17951102	7	3.7	7	100	0	52	15	26	26	30	1.96
17952265--17952299	4	8.8	4	93	0	61	22	0	22	54	1.45
17954675--17954746	34	2.2	33	82	7	83	56	11	11	20	1.64
17955358--17955391	15	2.3	15	94	0	59	2	11	11	73	1.20
17955782--17956108	163	2.0	163	100	0	654	23	9	24	42	1.83
17956295--17956392	35	2.8	35	93	0	169	23	7	43	25	1.79
17956292--17956405	35	3.3	33	84	15	158	21	7	45	25	1.77
17971623--17972070	195	2.3	194	83	4	564	25	27	20	27	1.99
17972544--17972575	16	2.0	16	93	0	55	25	18	3	53	1.59
17974910--17974981	32	2.3	32	79	18	80	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17974897--17974981	28	3.0	28	86	10	113	29	1	0	69	0.96
17979235--17979298	26	2.6	26	80	16	82	7	14	6	71	1.28
17981252--17981300	21	2.4	21	86	3	64	51	16	0	32	1.45
17981265--17981316	20	2.6	21	88	11	74	50	15	0	34	1.45
17982826--17982864	18	2.2	18	90	0	60	28	12	15	43	1.83
17993285--17993335	24	2.1	25	96	3	95	7	43	0	49	1.32
17994489--17994531	20	2.2	20	86	0	59	30	11	18	39	1.86
17995404--17995586	69	2.7	69	87	0	240	20	22	24	32	1.97
17995599--17996303	215	3.3	213	82	5	775	40	14	16	27	1.87
17995599--17996303	211	3.3	211	81	5	790	40	14	16	27	1.87
17996761--17996924	80	2.1	79	89	4	251	29	16	19	34	1.94
17997327--17997464	48	2.9	49	91	4	219	52	14	9	23	1.70
17997760--18000196	216	11.3	216	82	3	2602	40	14	16	28	1.87
17997760--18000189	431	5.6	431	81	4	2694	40	14	16	28	1.87
18000196--18001330	216	5.2	216	85	3	1516	27	17	15	39	1.90
18001790--18001940	80	1.9	80	90	0	239	29	15	21	33	1.95
18003842--18003955	48	2.4	48	90	0	183	53	14	9	22	1.69
18003842--18003982	48	2.9	47	84	6	133	53	14	9	21	1.69
18004247--18006805	215	11.9	215	82	5	2662	27	16	15	40	1.88
18006644--18006975	170	1.9	171	80	6	379	26	19	15	39	1.91
18006431--18007154	387	1.9	386	81	6	878	27	17	15	39	1.89
18006817--18008095	215	6.0	216	80	7	1388	28	16	15	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18005997--18007621	818	2.0	818	81	5	1915	28	16	15	40	1.89
18008647--18008675	13	2.2	13	100	0	58	13	34	13	37	1.85
18010992--18013217	216	10.3	217	82	5	2443	28	16	15	39	1.89
18013232--18014501	433	2.9	427	82	5	1466	40	14	15	29	1.88
18013232--18014505	216	5.9	214	83	3	1428	40	14	16	29	1.88
18014588--18014664	30	2.6	30	74	0	82	24	23	27	24	2.00
18014585--18014664	15	5.3	15	71	5	63	25	22	28	23	1.99
18017281--18018128	438	1.9	438	92	0	1430	43	14	18	23	1.86
18022903--18022947	23	2.0	23	95	4	83	0	13	4	82	0.82
18022897--18022955	5	12.4	5	75	22	56	1	15	3	79	0.94

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