genome.fa.s3.2.7.7.80.10.50.1000.125.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  125  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)
39780836--39781007	94	1.8	93	86	1	245	18	29	18	34	1.94
39780923--39781341	50	8.5	49	81	3	367	18	29	17	34	1.94
39780919--39781341	147	2.9	148	82	3	485	17	29	17	34	1.94
39780856--39781347	99	5.0	99	77	7	400	18	28	18	34	1.95
39788536--39788732	64	2.9	68	75	9	161	46	6	9	37	1.63
39792553--39792890	59	5.8	59	75	9	250	34	8	25	32	1.86
39792573--39792895	116	2.8	117	78	6	325	33	8	25	32	1.86
39792533--39792993	29	15.8	29	69	17	142	32	7	26	32	1.85
39792816--39792965	58	2.5	57	84	6	183	31	4	30	33	1.78
39792810--39793004	88	2.2	88	85	2	259	30	5	28	35	1.79
39792852--39793042	29	6.5	29	78	8	147	32	4	25	37	1.75
39794534--39794608	6	13.0	6	72	8	66	53	2	1	42	1.23
39794534--39794608	17	4.4	17	81	1	96	53	2	1	42	1.23
39794536--39794609	11	7.0	11	71	18	50	55	2	1	40	1.22
39794912--39795117	86	2.4	86	94	1	351	24	22	16	35	1.95
39795009--39795612	209	2.9	208	85	2	800	23	23	18	35	1.96
39806209--39806241	17	2.0	17	88	5	50	45	3	3	48	1.33
39806247--39806277	15	2.0	16	93	6	55	48	0	0	51	1.00
39806880--39806917	17	2.2	18	85	4	51	42	2	5	50	1.39
39807348--39807416	34	2.0	34	86	8	95	33	2	17	46	1.63
39808378--39808550	29	6.1	28	69	9	100	27	15	5	52	1.65
39808349--39808541	58	3.4	58	80	4	162	26	12	7	53	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39808952--39809051	52	1.9	52	87	4	148	18	19	32	31	1.95
39809354--39809459	37	2.9	37	75	2	97	31	6	17	44	1.75
39809615--39809651	3	12.3	3	100	0	74	32	0	0	67	0.91
39814428--39814696	29	9.1	30	65	19	145	35	5	27	31	1.79
39814421--39814736	59	5.4	59	87	3	408	34	5	28	31	1.80
39814595--39814699	31	3.5	31	68	20	96	34	5	28	31	1.81
39814708--39814946	30	8.0	30	91	1	374	34	4	24	36	1.75
39814800--39814854	19	3.3	19	63	36	54	29	3	27	40	1.73
39815044--39815353	162	1.9	161	90	3	489	45	13	16	25	1.83
39815794--39815841	21	2.3	22	83	16	59	10	16	4	68	1.33
39816693--39816724	16	1.9	17	93	6	57	9	6	56	28	1.55
39816899--39816965	6	11.7	6	76	9	68	55	2	0	41	1.15
39816890--39816965	23	3.1	23	73	23	73	55	2	0	42	1.14
39816899--39816958	11	5.3	11	76	13	59	56	3	0	40	1.16
39816890--39816972	17	4.9	17	83	0	94	55	3	0	40	1.17
39817286--39817608	76	4.2	76	90	1	493	29	17	16	35	1.93
39817339--39817608	38	7.1	38	70	14	207	30	17	16	35	1.92
39817608--39818532	68	13.6	68	92	1	1496	26	19	19	35	1.95
39830455--39830680	59	3.8	59	89	0	337	34	4	28	31	1.78
39830462--39830675	30	7.2	30	65	20	110	36	4	27	31	1.77
39830455--39830651	29	6.7	30	69	17	128	35	5	27	31	1.79
39830459--39830710	118	2.1	118	84	5	323	35	4	27	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39830677--39830769	29	3.2	29	90	1	141	33	4	23	38	1.75
39830878--39831180	162	1.9	162	89	1	473	45	13	15	25	1.82
39831617--39831658	21	2.0	22	86	13	61	7	19	4	69	1.31
39832518--39832549	16	1.9	17	93	6	57	9	6	56	28	1.55
39832724--39832790	6	11.7	6	78	9	77	53	2	0	43	1.16
39832715--39832769	11	4.9	11	79	16	60	52	3	0	43	1.18
39832715--39832797	17	4.9	17	86	0	103	54	3	0	42	1.18
39836559--39836672	35	3.3	35	82	0	156	35	4	28	31	1.77
39836559--39836702	70	2.1	70	82	2	173	33	5	29	31	1.80
39845910--39845961	23	2.2	25	83	10	65	28	15	7	48	1.73
39848912--39848952	12	3.2	13	80	20	50	29	0	2	68	1.03
39849655--39849681	2	13.5	2	100	0	54	51	0	0	48	1.00
39858432--39858593	29	5.6	29	84	0	198	38	16	8	37	1.79
39860546--39860609	21	3.0	21	81	0	74	45	10	14	29	1.78
39866672--39866711	12	3.2	13	85	7	55	77	0	12	10	0.99
39868348--39868391	16	2.7	16	89	3	61	43	0	0	56	0.99
39868513--39868570	31	1.9	30	82	6	73	50	6	0	43	1.29
39879057--39879145	40	2.2	40	82	6	108	31	32	13	22	1.93
39908140--39908180	15	2.7	15	88	11	57	68	0	31	0	0.90
39915468--39915513	24	1.9	24	82	8	58	39	2	4	54	1.32
39924450--39924484	16	2.2	16	89	0	52	28	34	11	25	1.91
39925209--39925242	16	2.2	15	89	5	50	44	0	8	47	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39925416--39925516	49	2.1	49	88	3	150	35	9	8	45	1.69
39927101--39927138	18	2.0	20	85	10	53	26	15	13	44	1.83
39932449--39932536	43	2.0	43	100	0	176	43	11	9	36	1.72
39940947--39940985	19	2.1	19	85	9	53	53	5	7	33	1.51
39951494--39951568	24	3.1	24	92	0	123	56	9	10	24	1.63
39953491--39953555	24	2.7	24	92	0	112	55	7	10	26	1.61
39961473--39961518	25	1.9	23	86	8	65	34	2	6	56	1.37
39964150--39964337	51	3.6	51	80	5	189	28	22	15	33	1.95
39970521--39970560	14	2.7	14	88	7	53	22	2	0	75	0.93
39972566--39972611	25	1.9	25	86	8	69	32	4	6	56	1.45
39978279--39978319	15	2.7	16	85	7	59	41	7	19	31	1.79
39986372--39986452	24	3.4	24	94	0	144	55	7	9	27	1.59
39989790--39989844	19	2.9	19	82	12	60	23	1	1	72	1.04
39989788--39989846	14	4.4	14	77	10	61	23	1	1	72	1.02
39992164--39992378	18	11.4	18	87	6	207	15	11	0	72	1.17
39992206--39992257	7	7.4	7	95	0	59	17	9	0	73	1.09
39992180--39992358	12	14.3	12	91	4	234	16	12	0	70	1.16
39992164--39992378	12	17.7	12	83	7	202	15	11	0	72	1.17
39992164--39992379	6	34.5	6	88	5	155	15	11	0	72	1.16
39998670--39998831	87	1.9	86	87	6	238	34	23	16	25	1.95
40002891--40002951	24	2.6	23	80	12	70	59	0	22	18	1.38
40003463--40003501	18	2.1	19	85	4	53	35	5	0	58	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40005562--40005633	5	14.4	5	69	16	51	16	4	2	76	1.06
40005587--40005633	17	2.9	17	84	6	62	17	4	2	76	1.04
40009907--40009958	16	3.3	15	81	10	59	80	0	17	1	0.80
40010796--40011342	100	5.4	101	77	3	478	36	17	19	25	1.94
40011069--40011195	50	2.5	49	74	12	123	37	18	23	21	1.94
40010847--40011350	200	2.5	200	82	4	595	36	17	20	25	1.94
40011589--40012041	97	4.6	100	78	5	274	35	18	19	25	1.95
40011680--40011901	50	4.4	49	66	15	116	35	18	19	26	1.95
40011516--40012162	100	6.5	98	77	6	464	35	17	20	26	1.95
40013281--40013307	5	5.4	5	100	0	54	18	0	0	81	0.69
40013607--40013669	26	2.3	27	84	10	76	19	6	1	73	1.13
40015123--40015147	5	5.0	5	100	0	50	20	0	0	80	0.72
40020438--40020566	17	7.4	17	81	7	152	41	2	3	53	1.29
40020438--40020566	6	22.2	6	69	15	92	41	2	3	53	1.29
40020438--40020566	35	3.7	34	82	7	152	41	2	3	53	1.29
40022281--40022549	30	9.1	29	80	11	246	36	26	1	36	1.64
40022281--40022548	59	4.5	58	78	9	260	36	26	1	35	1.64
40022291--40022602	30	10.6	29	77	11	113	35	24	2	37	1.69
40022864--40023039	98	1.8	97	86	1	253	30	17	11	40	1.86
40024090--40024137	18	2.7	18	90	6	62	35	25	18	20	1.95
40024099--40024137	18	2.2	18	95	4	71	38	20	20	20	1.94
40033572--40033635	31	2.1	31	100	0	128	32	15	23	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40033712--40033783	30	2.3	31	83	4	83	66	0	20	12	1.24
40035228--40035288	30	2.1	29	90	3	95	55	14	6	22	1.62
40039393--40039460	34	2.0	34	97	0	127	25	10	23	41	1.86
40044035--40044455	210	2.0	210	97	0	790	28	12	14	44	1.82
40054430--40054554	43	2.9	45	78	7	150	38	20	8	33	1.81
40064631--40064670	17	2.4	17	91	8	64	15	17	12	55	1.70
40064648--40064696	17	2.9	17	78	0	53	18	14	14	53	1.74
40066708--40066738	16	1.9	16	93	0	53	22	16	0	61	1.34
40066950--40067023	24	3.1	24	84	7	80	28	14	20	36	1.92
40068885--40068940	23	2.5	22	77	8	58	35	17	1	44	1.60

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