genome.fa.s4.2.7.7.80.10.50.1000.92.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  92  of  193  ( 23090 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)
29952612--29952660	25	2.0	23	85	14	64	20	4	4	71	1.19
29953717--29953761	19	2.3	20	88	3	65	60	2	2	35	1.22
29955952--29955976	13	1.9	13	100	0	50	36	0	8	56	1.29
29959920--29960006	42	2.0	43	93	2	149	35	12	26	25	1.92
29961447--29961489	12	3.5	12	76	17	52	41	9	4	44	1.57
29961440--29961489	25	2.0	25	100	0	100	44	8	8	40	1.63
29961652--29961724	34	2.1	35	87	2	103	71	15	9	4	1.27
29963269--29963308	20	2.0	20	95	0	71	35	2	20	42	1.65
29964465--29964520	16	3.5	16	85	0	85	39	5	28	26	1.78
29964693--29964838	58	2.5	56	82	11	179	50	1	2	46	1.21
29968119--29968185	33	2.0	34	82	8	84	46	1	8	43	1.44
29969134--29969189	26	2.2	26	100	0	112	19	26	14	39	1.90
29971105--29971143	20	2.0	20	90	10	62	51	0	0	48	1.00
29971125--29971312	34	5.6	34	71	10	125	50	7	0	42	1.34
29971131--29971345	102	2.1	102	88	0	313	49	7	0	41	1.35
29971209--29971272	26	2.5	26	86	0	83	48	9	0	42	1.35
29971292--29971324	4	8.5	4	93	6	59	51	0	0	48	1.00
29971264--29971345	42	2.0	42	87	0	119	47	7	0	45	1.30
29971334--29971440	14	8.0	13	69	22	71	50	4	0	44	1.22
29971226--29971442	69	3.0	71	82	8	235	49	7	0	42	1.31
29971487--29971511	4	6.2	4	100	0	50	52	0	0	48	1.00
29971226--29971594	195	1.9	190	87	7	548	50	8	0	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29971528--29971576	14	3.9	14	70	29	56	53	0	0	46	1.00
29971505--29971578	22	3.4	22	83	1	96	48	5	0	45	1.25
29977699--29978195	43	11.6	43	84	0	530	22	18	29	29	1.97
29978991--29979194	27	7.9	27	74	11	149	40	25	15	18	1.90
29982334--29982428	46	2.0	47	93	2	165	29	11	15	43	1.82
29986793--29986826	16	2.2	16	89	5	52	38	5	8	47	1.59
29988343--29988383	5	8.2	5	100	0	82	39	19	19	21	1.93
29988934--29989014	42	1.9	42	90	5	128	29	0	23	46	1.52
29993454--29993497	20	2.3	19	88	4	61	25	18	25	31	1.97
30000649--30000896	123	2.0	123	100	0	496	29	20	9	39	1.85
30011517--30011549	15	2.1	16	94	5	59	9	30	0	60	1.27
30026869--30026919	3	16.7	3	95	4	93	64	0	0	35	0.94
30028178--30028211	15	2.2	16	89	5	52	55	2	0	41	1.15
30029488--30029538	18	2.8	18	93	0	84	31	43	5	19	1.75
30029540--30029608	27	2.6	27	86	4	95	17	62	4	15	1.48
30029680--30029733	21	2.5	22	82	5	67	24	62	1	11	1.37
30029680--30029733	24	2.2	24	90	0	81	24	62	1	11	1.37
30029734--30029780	12	3.8	12	82	2	58	27	48	10	12	1.74
30029800--30029845	6	7.8	6	79	13	51	13	71	2	13	1.23
30029865--30029917	12	4.4	12	74	9	54	33	37	13	15	1.86
30036699--30036894	98	2.0	98	88	2	295	37	17	17	28	1.92
30037186--30037334	29	5.1	29	80	5	140	36	4	24	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30037206--30037350	58	2.5	60	83	5	172	38	6	24	31	1.80
30039035--30039127	6	16.2	6	69	12	61	54	4	1	39	1.27
30039035--30039142	17	6.3	17	83	2	126	53	5	0	39	1.30
30039554--30040249	78	8.9	76	75	9	501	25	18	31	24	1.98
30039570--30040243	39	17.3	38	73	9	389	24	18	31	24	1.97
30039644--30040243	117	5.1	116	83	2	650	24	18	32	25	1.97
30051823--30052016	97	2.0	97	85	0	262	36	15	18	29	1.92
30052321--30052518	29	6.8	29	84	8	208	36	3	25	34	1.72
30052299--30052550	59	4.3	58	78	9	219	38	2	25	34	1.70
30052326--30052518	58	3.3	59	85	4	232	36	3	25	34	1.72
30054301--30054373	17	4.2	17	85	3	101	54	2	1	41	1.23
30054301--30054373	35	2.1	35	87	2	103	54	2	1	41	1.23
30056146--30056361	90	2.4	90	77	9	210	41	15	9	33	1.80
30061583--30061676	29	3.2	28	68	10	73	32	4	34	28	1.77
30061522--30061863	59	5.8	59	86	5	464	33	3	31	32	1.74
30061526--30061863	176	1.9	176	89	3	520	33	3	31	31	1.74
30061522--30061863	117	2.9	117	87	3	485	33	3	31	32	1.74
30063714--30063757	17	2.7	15	80	19	52	50	2	4	43	1.35
30066088--30066140	26	2.0	27	85	7	72	60	3	1	33	1.26
30066148--30066288	55	2.6	55	76	11	139	43	2	28	25	1.66
30066159--30066269	55	2.0	57	84	10	151	42	2	27	27	1.69
30068627--30068669	15	2.7	16	83	16	54	20	4	0	74	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30069038--30069084	3	16.0	3	78	12	53	36	0	0	63	0.94
30069597--30069631	18	1.9	18	100	0	70	57	17	8	17	1.64
30070838--30070891	23	2.4	23	78	9	67	61	1	20	16	1.44
30071535--30071879	30	11.8	29	65	24	129	33	27	2	36	1.72
30071518--30071967	59	7.6	59	82	7	497	32	27	2	36	1.71
30071518--30071967	177	2.5	177	82	6	547	32	27	2	36	1.71
30071505--30071985	118	4.1	118	83	6	550	33	26	2	37	1.70
30071518--30072020	177	2.8	176	81	7	463	33	26	2	37	1.72
30073099--30073131	13	2.6	13	95	4	59	48	6	0	45	1.27
30084123--30084716	200	3.0	199	91	1	967	36	22	23	18	1.95
30087056--30087327	59	4.6	58	80	5	298	33	29	1	35	1.68
30087056--30087327	117	2.3	117	86	0	382	33	29	1	35	1.68
30089328--30089358	13	2.5	13	94	5	55	58	12	0	29	1.35
30089952--30089981	14	2.1	14	93	0	51	0	16	0	83	0.65
30100404--30100458	19	2.8	20	78	10	60	81	3	12	1	0.89
30101402--30101736	50	6.7	50	70	10	128	37	18	16	27	1.92
30101401--30101842	101	4.4	101	77	4	403	36	18	17	27	1.93
30101401--30101851	201	2.2	201	81	2	503	36	18	17	27	1.93
30101401--30101877	100	4.8	100	77	3	397	36	18	16	28	1.93
30103331--30103381	4	13.8	4	80	15	65	21	1	0	76	0.88
30103331--30103381	10	4.6	11	90	7	61	21	1	0	76	0.88
30105183--30105345	86	1.9	85	89	1	254	28	25	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30105180--30105347	43	3.9	43	82	3	196	27	25	17	29	1.97
30105618--30105742	66	1.9	66	86	0	178	16	25	17	40	1.91
30111262--30111288	6	4.5	6	100	0	54	29	0	14	55	1.40
30111457--30111530	34	2.2	34	90	0	112	43	0	8	48	1.32
30111547--30111573	13	2.1	13	100	0	54	48	0	7	44	1.31
30113593--30113751	42	3.8	41	80	4	160	20	27	15	37	1.92
30113886--30113926	18	2.3	19	80	16	52	31	0	7	60	1.24
30115495--30115654	40	4.0	40	85	3	133	19	24	19	36	1.94
30115516--30115655	40	3.5	39	86	2	190	17	23	20	38	1.93
30117344--30117524	52	3.5	52	83	4	222	27	17	23	31	1.97
30119439--30119481	5	8.6	5	82	7	52	76	2	0	20	0.89
30120525--30120565	13	3.2	13	82	0	55	46	17	17	19	1.85
30127497--30127538	7	6.0	7	88	0	57	26	28	26	19	1.98
30128146--30128185	21	2.0	20	85	14	55	72	2	20	5	1.15
30132827--30132853	10	2.7	10	100	0	54	44	0	7	48	1.31
30133697--30133935	52	4.6	51	80	10	245	28	14	24	32	1.95
30133701--30133935	104	2.3	104	84	7	291	27	14	24	33	1.95
30137847--30137874	11	2.5	11	100	0	56	75	10	0	14	1.06
30138482--30138515	15	2.2	16	89	5	52	17	8	0	73	1.08
30138528--30138570	2	22.5	2	90	9	72	51	0	0	48	1.00
30143744--30143790	24	2.0	22	84	8	58	27	27	0	44	1.55
30146778--30146839	15	3.9	15	80	16	72	82	0	17	0	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30146784--30146857	21	3.4	22	83	7	80	78	0	21	0	0.75
30146778--30146850	10	6.9	10	76	17	67	80	0	19	0	0.71
30146782--30146865	29	3.0	29	77	22	90	78	0	21	0	0.75
30146788--30146867	33	2.3	35	80	6	101	78	0	21	0	0.75
30146778--30146866	11	8.4	11	79	9	87	79	0	20	0	0.73
30146782--30146867	27	3.2	26	79	12	93	79	0	20	0	0.74
30147835--30148224	50	7.9	49	71	3	199	33	16	32	17	1.92
30147819--30148267	99	4.6	99	84	1	510	34	16	31	17	1.92
30147951--30148227	49	5.6	49	74	7	175	33	15	34	16	1.91
30148617--30149098	122	4.0	122	85	1	644	37	17	22	22	1.94

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   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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193