genome.fa.s3.2.7.7.80.10.50.1000.2.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  2  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)
415588--415634	23	2.1	22	88	4	67	70	2	0	27	0.99
416541--416582	2	21.0	2	100	0	84	50	0	0	50	1.00
424357--424583	43	5.3	42	79	6	224	28	24	19	26	1.99
424357--424552	42	4.6	42	81	6	207	27	25	20	27	1.99
424397--424618	86	2.6	86	79	3	234	28	24	18	28	1.98
427300--427338	19	2.1	19	90	0	60	30	10	7	51	1.64
428953--429002	24	2.1	24	100	0	100	62	4	8	26	1.41
430535--430567	5	6.6	5	100	0	66	60	18	0	21	1.36
431760--431785	8	3.2	8	100	0	52	61	0	0	38	0.96
431724--431795	27	2.6	27	79	16	85	56	0	0	43	0.99
431922--431984	23	2.8	24	81	13	71	66	0	0	33	0.92
455186--455226	16	2.6	16	84	11	57	34	0	0	65	0.93
456028--456055	6	4.7	6	100	0	56	0	17	50	32	1.47
456060--456091	3	10.7	3	100	0	64	0	34	0	65	0.93
465693--465749	26	2.3	23	82	11	69	63	7	3	26	1.36
472123--472147	7	3.6	7	100	0	50	72	12	0	16	1.13
479504--479568	28	2.4	28	80	14	73	46	4	4	44	1.44
484824--484850	5	5.4	5	100	0	54	18	0	0	81	0.69
490633--490665	15	2.2	15	89	10	50	39	0	6	54	1.25
497910--497970	21	2.9	21	95	0	113	19	27	26	26	1.99
500497--500543	3	15.7	3	100	0	94	68	0	0	31	0.90
503176--503214	18	2.1	19	90	4	62	46	2	2	48	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503181--503221	19	2.2	18	86	4	55	46	2	4	46	1.37
506241--506268	2	14.0	2	100	0	56	50	0	0	50	1.00
507129--507161	12	2.6	13	95	4	59	36	15	9	39	1.79
513252--513283	4	8.0	4	100	0	64	50	25	0	25	1.50
515208--515232	3	8.3	3	100	0	50	32	0	0	68	0.90
517385--517432	24	2.0	25	83	4	62	66	0	10	22	1.22
524591--524632	21	1.9	22	85	9	59	30	2	4	61	1.29
526285--526315	3	10.0	3	93	6	53	64	0	3	32	1.09
526339--526375	2	18.5	2	94	0	65	48	0	51	0	1.00
538849--538897	21	2.3	21	79	6	55	65	4	2	28	1.22
546183--546211	2	14.5	2	100	0	58	48	51	0	0	1.00
553961--553992	2	16.0	2	100	0	64	50	0	0	50	1.00
558994--559163	40	4.2	40	82	5	173	25	27	26	20	1.99
559053--559166	41	2.8	39	81	6	129	21	28	26	23	1.99
560943--560975	15	2.2	15	94	0	57	21	0	27	51	1.48
562221--562291	31	2.4	32	84	13	98	43	4	0	52	1.20
562506--562550	24	1.9	24	86	4	65	42	2	11	44	1.52
565122--565186	29	2.2	31	83	5	80	41	3	6	49	1.43
566273--566298	2	13.0	2	100	0	52	0	0	50	50	1.00
569531--569577	25	1.9	25	83	12	62	57	2	0	40	1.11
570450--570519	36	1.9	36	85	5	97	60	4	0	35	1.17
572012--572055	23	1.9	23	86	9	63	56	6	4	31	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582067--582114	2	24.0	2	100	0	96	50	0	50	0	1.00
583605--583629	3	8.3	3	100	0	50	36	32	0	32	1.58
596838--596870	15	2.2	15	89	10	50	60	0	0	39	0.97
602694--602718	11	2.3	11	100	0	50	68	0	0	32	0.90
602996--603053	7	8.1	7	96	3	107	0	58	0	41	0.98
603657--603707	12	4.1	12	72	18	50	62	0	0	37	0.95
609952--609978	3	9.0	3	100	0	54	33	66	0	0	0.92
618600--618661	30	2.1	30	84	6	81	40	1	4	53	1.32
632154--632200	16	2.9	16	75	12	51	31	10	0	57	1.33
632224--632275	17	3.1	17	83	8	63	57	0	0	42	0.98
638515--638578	32	2.0	32	100	0	128	59	3	18	18	1.51
639899--640026	23	5.4	23	81	10	125	11	22	21	43	1.85
639900--640025	47	2.7	47	82	7	148	11	23	21	43	1.85
639933--640073	70	2.0	66	85	11	185	12	22	21	43	1.85
642542--642694	57	2.6	58	86	7	204	43	1	2	52	1.23
642558--642700	57	2.5	57	89	3	216	44	0	2	51	1.21
642780--642874	44	2.1	46	88	3	140	37	28	3	30	1.73
652693--652733	16	2.4	16	88	12	55	53	0	2	43	1.13
653233--653301	29	2.3	29	85	5	84	50	14	13	21	1.76
662321--662364	22	2.0	23	90	4	72	43	0	0	56	0.99
662251--662538	146	2.0	146	97	0	540	45	4	7	41	1.54
665779--665832	20	2.9	20	76	20	55	44	9	0	46	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688645--688694	18	2.7	20	79	17	63	28	0	2	70	0.99
697637--697726	16	5.6	16	72	17	62	57	1	0	41	1.06
697652--697726	20	3.5	20	76	15	69	58	1	0	40	1.06
700623--700672	12	4.2	12	77	10	57	44	12	16	28	1.83
700622--700667	24	1.9	24	90	0	74	47	10	17	23	1.79
713749--713785	13	2.6	14	87	12	58	0	35	2	62	1.10
713756--713788	13	2.5	13	100	0	66	0	36	0	63	0.95
718487--718524	7	5.6	7	93	6	69	86	0	13	0	0.56
718486--718524	13	2.9	13	88	3	60	87	0	12	0	0.55
726442--726479	18	2.1	18	100	0	76	23	50	15	10	1.75
727243--727283	20	2.1	19	86	4	55	58	0	0	41	0.98
742624--742771	72	2.1	72	93	0	251	28	27	13	30	1.94
745866--745909	20	2.2	20	84	8	54	11	2	18	68	1.30
745868--745931	33	2.0	33	84	9	87	12	3	15	68	1.32
746663--746736	11	5.8	12	74	19	53	40	5	0	54	1.24
754762--754830	28	2.5	27	86	6	86	42	1	0	56	1.08
757395--757423	2	14.5	2	100	0	58	51	0	0	48	1.00
764946--765000	28	1.9	28	82	10	67	41	1	3	52	1.29
769379--769448	23	2.9	23	70	17	61	42	2	0	54	1.15
769426--769504	36	2.2	35	82	10	90	44	5	2	48	1.38
769429--769501	17	4.2	17	72	16	60	43	5	2	47	1.40
773494--773540	23	2.0	23	91	0	76	29	6	23	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
774561--774635	25	3.1	24	88	7	100	38	22	28	10	1.87
784429--784504	32	2.3	33	86	9	109	7	30	3	57	1.45
784441--784504	32	2.0	32	93	0	110	9	28	3	59	1.44
786319--786394	17	4.5	17	77	9	75	42	1	3	52	1.28
786345--786404	6	10.3	6	72	13	54	48	1	0	50	1.11
788206--788363	28	5.5	28	72	17	128	37	29	1	31	1.66
788249--788350	30	3.5	30	76	12	122	35	31	0	32	1.65
788212--788407	57	3.4	56	83	8	234	35	30	1	33	1.67
788250--788400	29	5.2	29	71	20	93	35	27	1	35	1.69
792617--792645	13	2.2	13	100	0	58	20	13	41	24	1.89
798557--798595	7	5.6	7	100	0	78	15	12	28	43	1.83
800318--800357	21	1.9	21	85	10	55	32	7	17	42	1.77
800377--800414	16	2.4	16	82	4	51	42	0	2	55	1.14
806107--806323	23	9.3	23	79	6	204	44	20	21	12	1.85
806107--806323	94	2.3	93	90	6	348	44	20	21	12	1.85
806109--806303	71	2.8	70	81	10	236	44	20	22	13	1.86
808872--808918	22	2.2	21	85	11	60	57	0	6	36	1.24
809884--809915	15	2.1	15	100	0	64	40	21	18	18	1.91
813227--813290	2	32.0	2	100	0	128	50	0	50	0	1.00
814585--814634	13	3.9	13	81	2	57	34	2	4	60	1.27
823661--823706	23	2.0	23	83	8	58	45	2	4	47	1.34
824994--825680	120	5.6	123	83	6	785	49	9	10	30	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
824994--825680	245	2.8	242	87	4	936	49	9	10	30	1.69
834738--834769	15	2.1	16	94	5	57	75	0	0	25	0.81
834968--835056	30	3.0	29	76	12	81	30	4	4	60	1.36
840368--840392	2	12.5	2	100	0	50	0	48	0	52	1.00
841275--841529	51	5.0	51	89	0	395	41	27	15	15	1.88
860150--860175	12	2.2	12	100	0	52	53	7	15	23	1.67
865867--865908	21	2.0	21	100	0	84	47	19	9	23	1.78
866803--866841	20	1.9	21	85	15	55	38	10	0	51	1.36
872311--872354	23	1.9	23	85	0	61	36	2	0	61	1.09
876746--876807	22	2.7	23	82	7	81	12	6	11	69	1.36

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