genome.fa.s4.2.7.7.80.10.50.1000.94.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  94  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)
30417150--30417289	74	1.9	74	85	2	192	40	30	19	9	1.83
30423820--30423882	19	3.2	19	75	13	56	38	1	11	49	1.48
30424193--30424260	26	2.5	27	72	11	68	41	5	8	44	1.60
30424501--30424716	24	9.2	24	84	5	183	36	18	26	18	1.94
30430461--30430498	20	1.9	20	88	0	58	65	7	0	26	1.19
30430466--30430529	32	2.0	33	87	3	94	68	6	3	21	1.26
30430953--30430981	13	2.3	13	94	5	51	37	0	0	62	0.96
30430950--30430984	12	2.9	12	88	12	54	45	0	0	54	0.99
30431503--30431530	11	2.5	11	100	0	56	17	0	0	82	0.68
30431522--30431587	21	3.2	20	83	8	87	40	0	1	57	1.08
30431522--30431587	20	3.2	19	82	16	78	40	0	1	57	1.08
30433245--30433282	3	12.7	3	100	0	76	0	34	0	65	0.93
30433434--30433469	2	18.0	2	94	0	63	50	0	47	2	1.15
30449148--30449361	38	5.7	38	75	1	173	33	30	21	14	1.93
30449148--30449373	75	3.0	74	75	3	211	34	29	21	15	1.94
30449163--30449377	112	1.9	113	83	2	281	32	29	21	16	1.95
30454674--30454734	30	2.0	30	81	6	70	39	3	19	37	1.68
30454766--30455043	30	9.4	30	81	8	232	35	3	26	34	1.75
30454735--30454932	88	2.2	87	80	8	213	34	4	27	34	1.76
30454768--30455000	59	3.9	58	81	3	243	34	3	26	34	1.75
30454945--30455066	61	2.0	60	81	7	140	36	5	22	34	1.78
30456628--30456669	17	2.5	17	92	0	66	57	2	2	38	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30457138--30457245	53	2.0	53	98	0	207	27	21	32	18	1.97
30457191--30457718	39	13.5	39	68	10	272	25	18	31	24	1.97
30457191--30457754	78	7.2	78	84	0	599	25	18	31	24	1.97
30457932--30458649	99	7.3	98	80	5	655	17	33	16	33	1.92
30457927--30458645	50	14.5	50	75	6	502	17	32	16	33	1.92
30457927--30458645	149	4.8	149	76	7	615	17	32	16	33	1.92
30459559--30459602	20	2.2	20	83	4	52	9	9	0	81	0.87
30465450--30465791	30	11.6	30	78	6	229	37	3	23	35	1.72
30465449--30465762	59	5.4	56	79	9	227	37	2	23	35	1.70
30467541--30467598	17	3.5	17	83	2	64	56	3	1	37	1.26
30470357--30470707	38	9.3	38	76	4	318	34	28	22	14	1.94
30470351--30470625	113	2.4	112	86	3	372	35	29	21	14	1.93
30470346--30470707	113	3.2	110	79	10	365	34	29	21	14	1.93
30470362--30470723	75	4.8	75	79	7	351	34	28	21	15	1.94
30481228--30481263	2	18.5	2	94	5	65	50	0	50	0	1.00
30483698--30483762	32	2.0	32	100	0	130	40	27	12	20	1.88
30484252--30484279	13	2.2	13	100	0	56	25	14	14	46	1.82
30483946--30484599	330	2.0	331	99	0	1301	32	21	16	30	1.95
30490344--30490375	4	8.0	4	100	0	64	75	0	0	25	0.81
30495476--30495937	233	2.0	233	92	0	762	34	21	12	31	1.91
30501952--30501990	19	2.2	18	90	9	62	51	25	0	23	1.49
30502163--30502204	18	2.3	19	87	4	59	14	47	16	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30509199--30509241	20	2.2	19	84	12	52	44	4	2	48	1.36
30510398--30510468	30	2.4	31	79	11	85	21	19	7	52	1.70
30510599--30510722	17	7.4	16	66	20	58	25	6	1	66	1.25
30510647--30510722	17	4.5	17	73	18	70	25	3	1	69	1.13
30510648--30510726	31	2.5	31	84	12	90	26	5	1	67	1.19
30510683--30510753	34	2.1	33	86	2	97	28	9	0	61	1.27
30511873--30511919	22	2.1	22	84	7	60	42	0	19	38	1.51
30513988--30514042	19	2.8	20	89	8	78	27	0	20	52	1.46
30516629--30516655	13	2.1	13	100	0	54	48	7	29	14	1.71
30523470--30523515	25	1.9	25	82	8	60	73	6	6	13	1.22
30525368--30525421	18	3.1	18	80	15	60	40	25	0	33	1.56
30525367--30525421	17	3.2	17	80	14	60	40	27	0	32	1.57
30526220--30526275	12	4.8	11	75	18	51	50	0	1	48	1.11
30529049--30529117	16	4.5	15	74	16	54	33	0	0	66	0.92
30529078--30529149	30	2.3	30	83	9	83	36	1	0	62	1.04
30529076--30529147	32	2.2	32	80	14	85	36	1	0	62	1.04
30529152--30529212	23	2.6	24	75	17	65	37	1	3	57	1.25
30529232--30529320	26	3.5	25	77	10	74	51	0	1	47	1.08
30529226--30529322	19	5.0	19	75	14	58	50	0	1	48	1.07
30529252--30529322	21	3.3	20	77	16	63	54	0	0	45	0.99
30529267--30529322	12	4.7	12	77	22	64	58	0	0	41	0.98
30529273--30529320	7	7.4	7	82	17	68	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30529268--30529322	17	3.1	17	85	14	76	60	0	0	40	0.97
30529268--30529322	5	10.4	5	75	24	51	60	0	0	40	0.97
30533232--30533277	22	2.0	23	95	4	85	8	10	21	58	1.58
30533613--30533651	19	2.1	19	95	0	69	28	28	0	43	1.55
30537745--30537828	42	2.0	42	100	0	168	40	26	11	21	1.88
30543540--30543574	2	17.5	2	100	0	70	48	0	51	0	1.00
30543603--30543634	3	10.7	3	100	0	64	65	0	34	0	0.93
30548006--30548059	27	2.0	28	92	3	92	33	1	5	59	1.31
30553190--30553220	15	2.1	15	100	0	62	45	6	12	35	1.68
30558698--30558772	38	2.0	38	89	5	116	34	4	29	32	1.76
30558748--30559094	60	5.8	59	81	7	371	37	3	27	32	1.74
30558748--30559122	30	12.7	29	67	17	150	36	3	27	32	1.75
30560779--30560880	6	17.0	6	76	15	104	50	0	3	45	1.20
30560779--30560880	11	8.5	12	79	14	104	50	0	3	45	1.20
30560779--30560878	31	3.4	28	82	13	112	50	0	4	46	1.20
30560791--30560880	17	5.4	17	83	11	107	53	0	3	43	1.17
30560800--30560890	11	7.8	11	73	10	56	53	1	3	41	1.24
30560794--30560902	31	3.8	28	85	6	83	53	2	2	41	1.30
30561258--30562024	76	10.0	76	89	3	1128	32	18	15	33	1.93
30566865--30566905	16	2.8	16	85	14	61	4	29	0	65	1.13
30568929--30568954	12	2.2	12	100	0	52	7	42	19	30	1.79
30574188--30574247	28	2.1	28	87	0	84	25	8	33	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30574246--30574320	38	2.0	38	91	0	123	37	5	26	30	1.79
30574303--30574664	29	12.5	28	69	21	194	34	3	28	33	1.74
30574284--30574635	58	6.1	57	84	6	422	34	3	28	33	1.75
30575297--30575339	20	2.2	20	91	0	68	2	44	25	27	1.66
30576474--30576562	6	15.2	6	74	17	80	50	0	4	44	1.22
30576474--30576562	17	5.4	16	79	12	92	50	0	4	44	1.22
30576528--30576580	27	2.0	27	84	0	70	52	5	1	39	1.36
30577374--30577426	16	3.4	16	76	5	54	54	0	24	20	1.44
30580666--30580723	24	2.5	24	80	2	64	32	5	8	53	1.54
30589550--30589595	24	1.9	24	90	0	74	28	28	19	23	1.98
30589816--30589856	2	20.5	2	100	0	82	51	48	0	0	1.00
30595016--30595157	71	2.0	71	95	1	259	35	19	21	22	1.96
30597052--30597568	29	17.8	29	71	15	188	34	4	27	33	1.78
30597054--30597438	87	4.4	85	78	8	314	34	5	27	31	1.80
30597057--30597568	58	8.8	56	74	12	319	34	4	27	33	1.78
30598416--30598460	22	2.0	23	86	8	65	22	6	6	64	1.41
30599374--30599452	18	4.6	18	75	15	78	58	1	1	39	1.14
30599389--30599458	17	4.2	17	80	7	81	62	1	0	35	1.04
30599837--30600296	208	2.2	208	88	1	688	21	22	19	36	1.95
30600311--30600496	39	4.8	39	70	11	112	27	20	29	22	1.99
30600790--30601187	49	8.0	50	71	10	183	17	32	16	33	1.93
30600776--30601219	50	9.0	50	73	7	325	18	31	16	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30600789--30601222	99	4.4	98	72	8	351	18	32	15	33	1.93
30607245--30607448	29	6.9	30	69	18	92	37	2	24	35	1.69
30607338--30607407	28	2.5	29	81	6	83	35	2	22	38	1.69
30615478--30615518	17	2.4	17	87	4	55	21	26	2	48	1.63
30621276--30621341	33	2.0	33	100	0	132	57	12	3	27	1.49
30629303--30629347	23	1.9	24	86	4	65	11	17	0	71	1.14
30630033--30630103	31	2.4	30	88	4	99	23	15	22	38	1.93
30633580--30633615	6	6.0	6	100	0	72	66	33	0	0	0.92
30641450--30641500	22	2.5	20	78	9	57	29	0	1	68	1.00
30642449--30642473	7	3.6	7	100	0	50	28	0	12	60	1.32

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