genome.fa.s4.2.7.7.80.10.50.1000.90.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  90  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)
29473555--29473590	18	2.1	18	89	5	56	33	25	0	41	1.55
29476232--29476265	14	2.2	16	90	10	54	35	0	0	64	0.94
29480565--29480594	2	15.0	2	100	0	60	50	0	0	50	1.00
29487070--29487114	16	2.8	16	86	0	63	28	15	46	8	1.76
29487571--29487608	6	6.3	6	82	11	51	47	2	0	50	1.15
29489600--29489891	59	5.0	59	78	8	265	35	27	3	33	1.73
29489456--29489891	29	14.9	30	70	16	161	35	27	3	33	1.75
29489600--29489891	117	2.5	117	79	7	297	35	27	3	33	1.73
29493411--29493435	13	1.9	13	100	0	50	32	0	4	64	1.12
29493399--29493447	25	2.0	25	84	8	64	34	2	2	61	1.19
29495380--29495444	29	2.2	29	84	10	80	27	13	30	27	1.94
29495547--29495679	57	2.3	59	83	6	155	35	4	24	35	1.76
29495547--29495748	29	6.8	30	79	7	202	34	5	25	34	1.79
29495576--29495736	59	2.8	58	83	5	173	36	4	24	34	1.77
29497601--29497636	18	2.0	18	88	0	54	38	5	2	52	1.39
29499601--29499638	18	2.1	18	95	0	67	28	15	21	34	1.94
29501503--29501612	55	2.0	55	96	1	204	36	11	7	44	1.69
29501810--29501839	14	2.1	15	93	6	53	43	0	0	56	0.99
29502110--29502161	17	3.4	17	65	29	53	51	0	0	48	1.00
29502102--29502175	28	2.7	28	91	2	114	52	0	0	47	1.00
29502136--29502175	12	2.8	15	75	25	50	47	0	0	52	1.00
29502739--29502769	14	2.2	14	94	0	53	35	3	0	61	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29503504--29503544	19	2.1	20	86	4	57	70	0	2	26	0.99
29503890--29503930	18	2.3	18	95	0	73	31	9	0	58	1.31
29516586--29516630	23	2.0	23	87	8	67	60	0	0	40	0.97
29519387--29519469	4	20.8	4	97	0	148	48	24	2	25	1.63
29520250--29520284	15	2.3	15	95	0	61	14	37	20	28	1.91
29521665--29521790	32	4.2	31	73	17	104	36	23	3	37	1.71
29530058--29530148	28	3.2	27	69	23	71	35	29	3	31	1.74
29530075--29530163	28	3.1	29	68	30	75	33	31	2	32	1.70
29530086--29530177	30	3.2	29	70	25	86	35	30	1	32	1.65
29530029--29530220	57	3.4	57	85	9	232	34	29	2	33	1.71
29542296--29542997	198	3.5	199	91	1	1065	37	20	21	20	1.95
29543376--29543421	6	7.8	6	78	11	51	60	2	0	36	1.09
29543376--29543422	23	2.0	23	84	8	60	59	2	0	38	1.09
29545212--29545376	29	5.7	29	69	19	121	33	32	1	33	1.66
29545152--29545399	58	4.3	58	80	8	272	33	29	2	34	1.72
29545495--29545548	20	2.6	19	78	18	56	22	9	7	61	1.51
29548541--29549310	99	7.8	98	81	2	729	34	15	30	19	1.93
29548600--29549253	49	13.2	50	66	7	213	34	14	30	20	1.93
29548541--29549394	198	4.3	198	81	3	833	35	14	29	20	1.92
29548541--29549288	296	2.5	297	80	2	838	34	14	30	19	1.92
29549602--29549872	38	6.9	38	76	8	249	31	24	18	25	1.97
29549597--29549752	78	2.0	78	91	0	249	31	25	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29549602--29549872	116	2.3	118	85	3	368	31	24	18	25	1.97
29549618--29549880	80	3.4	77	75	11	225	32	23	18	26	1.97
29549901--29550053	50	3.1	50	82	0	155	33	20	16	28	1.95
29549934--29550059	49	2.6	49	84	1	162	36	21	13	28	1.91
29550675--29550719	21	2.2	20	84	15	56	62	15	22	0	1.33
29551483--29551537	25	2.2	25	83	0	74	36	0	20	43	1.52
29551904--29552103	29	6.7	29	78	10	147	34	24	4	37	1.74
29551907--29552100	58	3.2	58	76	12	162	35	24	4	36	1.75
29554994--29555033	19	2.1	19	86	13	55	15	2	5	77	1.04
29555402--29555444	15	2.9	15	75	0	50	32	18	37	11	1.87
29555796--29555823	4	7.0	4	100	0	56	50	25	0	25	1.50
29565261--29565300	7	5.9	7	91	5	55	27	12	10	50	1.72
29566193--29566243	16	3.2	16	91	0	84	19	11	15	52	1.73
29572203--29572235	6	5.5	6	86	13	50	18	0	81	0	0.68
29572206--29572234	13	2.3	13	94	5	51	13	0	86	0	0.58
29578081--29578163	17	4.9	17	85	5	107	38	1	1	59	1.13
29578107--29578164	11	5.3	11	75	8	64	39	0	1	58	1.08
29578086--29578163	6	13.8	6	75	12	67	39	1	1	57	1.15
29578081--29578156	39	1.9	39	86	5	109	36	1	1	60	1.13
29578124--29578181	28	2.1	28	87	6	82	41	0	5	53	1.23
29578206--29578246	13	3.1	14	75	10	50	48	24	14	12	1.78
29578188--29578255	26	2.5	26	81	9	75	45	26	14	13	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29578946--29578987	7	6.0	7	83	10	59	57	0	0	42	0.99
29578947--29578987	13	3.0	13	86	13	64	58	0	0	41	0.98
29580001--29580093	29	3.2	28	67	24	66	37	27	1	33	1.64
29579963--29580122	59	2.7	59	91	2	241	34	28	1	35	1.68
29580011--29580102	29	3.1	28	67	29	75	31	30	1	36	1.65
29580028--29580123	30	3.2	29	67	29	85	34	30	2	33	1.70
29580081--29580165	43	2.0	44	85	2	118	37	27	2	32	1.70
29580139--29580236	31	3.3	31	63	13	78	32	28	3	35	1.73
29580124--29580293	59	2.9	59	89	0	243	32	28	4	34	1.76
29580022--29580224	103	2.0	103	86	2	284	33	29	2	33	1.73
29579961--29580263	162	1.9	162	85	0	426	33	28	2	35	1.72
29580124--29580255	29	4.5	29	64	16	74	33	28	3	34	1.75
29584476--29585209	201	3.7	201	93	1	1242	35	23	23	17	1.95
29585539--29585645	17	6.3	17	78	7	92	35	1	6	56	1.36
29585584--29585644	23	2.7	23	85	7	72	34	0	6	59	1.24
29587444--29587861	59	7.1	59	86	2	556	32	30	3	33	1.73
29587449--29587846	117	3.4	116	87	3	539	33	30	2	33	1.72
29587444--29587869	116	3.6	115	83	7	500	33	30	3	32	1.74
29594447--29594494	21	2.3	21	92	0	78	31	4	25	39	1.74
29595559--29595596	20	2.0	20	85	10	53	47	10	0	42	1.38
29597132--29597162	4	7.8	4	100	0	62	77	0	0	22	0.77
29597814--29597872	29	2.0	29	80	6	66	54	5	8	32	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29598250--29598282	2	16.5	2	93	0	57	48	0	0	51	1.00
29601404--29601464	32	1.9	32	93	0	104	9	19	18	52	1.72
29606848--29606978	28	4.6	27	78	11	129	38	3	27	30	1.74
29606848--29607064	28	7.5	29	71	19	123	38	3	26	31	1.74
29606843--29607092	58	4.3	57	77	8	238	37	4	26	31	1.76
29606843--29607092	29	8.7	29	71	16	137	37	4	26	31	1.76
29607075--29607183	30	3.6	30	72	4	103	37	3	19	39	1.69
29606848--29607122	87	3.2	85	74	13	238	38	3	24	33	1.73
29608944--29609000	11	4.8	12	74	10	55	50	3	0	45	1.18
29608944--29609000	6	9.7	6	77	9	55	50	3	0	45	1.18
29608952--29609000	17	2.8	17	84	3	71	53	4	0	42	1.20
29616409--29616517	47	2.3	48	91	1	175	38	20	13	27	1.90
29619098--29619157	17	3.9	15	82	8	68	46	15	3	35	1.62
29619099--29619159	33	1.9	32	90	6	97	47	14	3	34	1.61
29620794--29621207	58	7.1	58	82	7	464	33	1	31	33	1.69
29620794--29621207	117	3.5	116	84	6	489	33	1	31	33	1.69
29622000--29622038	20	2.0	19	85	5	51	17	23	2	56	1.53
29622200--29622281	3	26.7	3	76	14	78	30	3	2	63	1.24
29622847--29622916	27	2.6	27	76	17	74	21	14	22	41	1.89
29622981--29623021	17	2.3	18	91	4	66	53	0	2	43	1.13
29623520--29623567	25	1.9	25	87	8	71	64	0	0	35	0.94
29624215--29624244	7	4.3	7	100	0	60	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29637494--29637528	18	1.9	18	88	0	52	42	20	8	28	1.81
29639902--29639951	26	1.9	26	84	8	66	26	10	12	52	1.70
29640048--29640113	29	2.3	30	79	10	84	25	18	24	31	1.97
29652556--29652608	23	2.2	24	87	12	83	41	7	37	13	1.72
29667286--29667335	25	2.0	25	84	3	66	4	28	0	68	1.08
29669413--29669456	3	14.7	3	90	0	70	29	2	2	65	1.16
29670422--29670454	15	2.1	16	88	5	50	42	6	6	45	1.53
29675468--29675618	60	2.5	62	85	4	200	33	23	13	30	1.93
29679760--29679860	36	2.8	36	83	4	132	20	25	14	38	1.91
29685598--29685656	6	9.8	6	73	14	50	38	5	1	54	1.33

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