genome.fa.s9.2.7.7.80.10.50.1000.139.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  139  of  182  ( 21729 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)
43383541--43383596	21	2.7	21	68	15	53	30	5	5	58	1.42
43389557--43389871	29	10.9	29	81	8	288	33	2	26	36	1.71
43390988--43391019	12	2.7	12	95	0	55	43	0	0	56	0.99
43391787--43391874	17	5.3	17	80	5	108	53	2	0	44	1.13
43391807--43391859	26	2.0	26	85	7	72	56	3	0	39	1.17
43391798--43391874	32	2.3	32	84	4	91	54	2	0	42	1.14
43392118--43392816	92	7.6	92	93	0	1193	32	17	16	33	1.92
43403859--43403993	58	2.3	58	80	1	135	42	6	20	31	1.77
43403980--43404291	29	10.7	30	77	15	237	34	3	24	37	1.72
43403976--43404291	88	3.6	86	78	10	299	34	3	25	37	1.72
43403980--43404291	58	5.4	59	80	12	292	34	3	24	37	1.72
43405429--43405460	15	2.1	15	94	0	55	40	0	0	59	0.97
43406225--43406256	17	1.9	17	93	6	57	56	3	3	37	1.31
43410373--43410433	25	2.4	26	94	2	106	27	34	14	22	1.94
43412269--43412309	20	2.0	20	86	13	57	78	0	21	0	0.76
43413061--43413193	60	2.2	60	85	5	171	38	6	14	40	1.72
43413915--43413999	17	5.4	16	68	29	58	65	2	0	31	1.05
43413949--43413998	17	2.9	18	82	8	68	68	0	0	32	0.90
43413908--43414001	26	3.5	27	77	13	79	67	2	0	30	1.03
43416294--43416338	19	2.4	19	81	7	56	37	0	2	60	1.09
43416277--43416329	28	2.0	25	82	17	63	37	0	3	58	1.16
43422209--43422242	15	2.2	16	89	5	52	8	8	5	76	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43428853--43428914	23	2.7	23	92	2	99	35	0	9	54	1.33
43430571--43431012	59	7.6	58	81	8	438	38	23	2	34	1.69
43430571--43431013	29	15.1	29	77	12	390	38	23	2	34	1.69
43430994--43431084	29	3.1	29	64	17	80	39	23	4	32	1.74
43430680--43431128	58	7.7	59	80	8	229	36	23	3	36	1.72
43431213--43431263	21	2.5	20	81	15	59	23	5	5	64	1.38
43443393--43443828	201	2.2	201	90	0	685	33	18	24	24	1.97
43444210--43444284	6	12.8	6	74	5	64	40	0	4	56	1.18
43444210--43444283	23	3.2	24	78	5	80	39	0	4	56	1.18
43444188--43444284	29	3.4	29	85	1	133	38	0	7	54	1.28
43451342--43451625	29	9.7	29	66	28	115	36	4	28	30	1.77
43451347--43451712	58	6.2	59	86	5	503	36	4	28	31	1.76
43451439--43451703	29	9.0	29	68	27	143	36	3	29	30	1.74
43451787--43452272	162	3.0	160	90	3	742	45	14	15	24	1.83
43453849--43453907	6	9.8	6	73	14	50	55	1	3	38	1.26
43453864--43453891	14	2.0	14	100	0	56	57	0	7	35	1.26
43454816--43454884	23	3.0	23	81	8	77	43	15	13	27	1.84
43454881--43454922	22	2.0	20	86	9	57	59	4	7	28	1.44
43458856--43458925	6	11.8	6	73	14	65	42	2	1	52	1.24
43458856--43458932	17	4.4	17	75	15	68	42	3	1	51	1.28
43458841--43458925	42	2.0	42	86	4	118	42	3	2	51	1.31
43460294--43460572	30	9.5	28	69	24	123	35	2	29	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43460294--43460725	58	7.3	59	84	7	538	34	3	29	31	1.74
43460380--43460663	30	9.5	28	66	20	96	35	2	29	31	1.72
43460294--43460724	29	14.6	29	66	18	174	34	3	29	32	1.74
43461317--43461350	18	1.9	18	88	5	52	2	58	26	11	1.47
43461793--43461817	7	3.6	7	100	0	50	28	0	0	72	0.86
43461796--43461872	3	24.7	3	72	7	55	35	2	5	57	1.35
43461796--43461860	25	2.6	25	80	2	67	35	3	4	56	1.35
43462534--43462620	6	15.0	6	73	20	78	56	0	1	42	1.07
43462518--43462620	17	6.3	17	84	10	117	53	0	0	44	1.13
43462534--43462637	11	9.0	11	71	13	75	55	0	0	42	1.12
43462908--43463517	38	16.4	38	65	19	171	33	18	13	34	1.90
43462913--43462998	37	2.3	37	83	2	100	34	23	9	32	1.87
43462946--43463768	76	11.0	76	87	6	1099	32	18	14	34	1.91
43463205--43463710	38	13.3	38	66	19	236	31	18	14	35	1.91
43470501--43470581	29	2.7	30	72	16	78	33	27	2	37	1.70
43470473--43470634	59	2.7	59	87	3	229	33	25	3	38	1.72
43473479--43473536	21	2.8	21	82	10	73	32	6	15	44	1.73
43476525--43476598	21	3.5	21	86	0	112	32	6	16	44	1.73
43478280--43478341	29	2.1	30	84	3	81	19	24	32	24	1.98
43478391--43478498	40	2.7	41	74	8	112	34	19	28	17	1.95
43478531--43478780	82	3.1	82	75	10	235	24	25	24	25	2.00
43478558--43478787	41	5.7	40	83	3	280	23	25	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43479321--43479810	170	2.9	170	88	2	729	30	16	22	30	1.95
43479868--43479938	29	2.5	29	81	2	72	63	2	1	32	1.18
43479869--43479919	14	3.3	15	79	17	52	64	3	1	29	1.22
43479900--43479928	11	2.5	12	94	5	51	62	0	0	37	0.96
43479881--43479966	15	6.1	14	71	24	56	65	1	3	30	1.17
43479877--43479968	28	3.3	28	80	4	80	65	1	3	30	1.16
43479991--43480065	39	1.9	39	84	10	100	53	2	2	41	1.29
43480001--43480074	29	2.6	28	71	10	71	55	2	2	39	1.28
43484022--43484251	29	7.8	29	70	12	121	37	25	2	34	1.70
43484022--43484246	59	3.9	57	75	8	177	37	25	2	34	1.70
43484076--43484256	88	2.0	88	78	4	193	35	25	2	36	1.71
43484095--43484302	59	3.5	60	77	4	201	33	25	4	36	1.77
43488318--43488351	16	2.3	14	90	10	50	79	0	20	0	0.73
43489181--43489230	20	2.5	20	81	9	59	76	0	22	2	0.89
43490211--43490339	48	2.6	49	72	8	118	35	16	27	20	1.94
43490239--43490550	48	6.5	48	70	11	185	36	17	27	18	1.93
43490246--43490420	93	1.9	92	84	3	235	34	17	28	19	1.95
43490804--43490895	41	2.2	41	90	0	139	33	18	15	32	1.92
43490885--43491332	39	11.7	39	72	10	194	22	31	21	24	1.99
43491119--43491262	72	2.0	72	86	0	198	20	29	22	27	1.98
43491229--43491404	39	4.6	39	75	10	164	24	34	19	22	1.97
43492867--43492895	14	2.1	14	100	0	58	62	6	0	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43493803--43493977	30	5.9	30	80	6	196	36	23	0	39	1.59
43493755--43493977	59	3.8	58	81	5	216	37	23	0	38	1.59
43493751--43493966	29	7.3	29	80	8	188	37	23	0	38	1.59
43501563--43501601	19	2.1	19	90	0	60	35	10	46	7	1.67
43501925--43502104	43	4.2	43	84	1	227	24	19	27	28	1.98
43501925--43502104	86	2.1	86	87	2	254	24	19	27	28	1.98
43521743--43522157	50	8.3	51	72	9	167	34	16	30	18	1.93
43521824--43522158	98	3.4	99	76	8	295	34	16	30	18	1.93
43522420--43522520	38	2.6	37	87	7	130	29	20	14	34	1.93
43522542--43522724	39	4.6	39	70	10	120	25	33	16	24	1.96
43522805--43523381	209	2.7	208	84	3	649	38	16	19	24	1.92
43530736--43530770	13	2.6	14	91	8	56	82	0	17	0	0.66
43530737--43530805	11	6.3	10	76	15	57	78	1	18	1	0.91
43530737--43530804	23	3.0	22	83	12	77	79	1	17	1	0.88
43531742--43532130	50	7.9	50	74	6	272	35	16	30	17	1.92
43531762--43531981	99	2.2	100	82	2	255	35	17	32	15	1.91
43531787--43532150	99	3.7	100	74	9	262	36	16	29	17	1.92
43532386--43532494	41	2.7	41	91	0	173	33	16	18	32	1.93
43532383--43532522	41	3.4	40	82	6	165	33	17	16	32	1.93
43532532--43532627	39	2.5	38	83	6	122	27	34	16	21	1.95
43532725--43533133	209	2.0	209	86	0	568	38	18	20	22	1.93
43545448--43545520	17	4.4	16	79	8	83	45	0	2	52	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43545453--43545522	6	12.2	6	70	19	51	47	0	2	50	1.16
43545448--43545520	34	2.2	33	90	2	110	45	0	2	52	1.15
43545448--43545534	34	2.6	33	82	8	79	47	2	2	48	1.27
43546211--43546286	9	7.9	9	76	13	53	55	1	2	40	1.22
43546243--43546286	3	14.0	3	81	9	52	61	0	2	36	1.09
43547351--43547451	29	3.6	26	82	15	96	37	27	2	31	1.72
43547379--43547788	29	14.2	28	68	15	167	31	27	4	36	1.76
43547415--43547637	59	3.8	58	81	6	220	33	27	3	36	1.73
43547389--43547904	58	8.9	57	76	10	281	31	26	4	36	1.78
43547887--43547955	28	2.5	28	80	2	77	31	27	8	31	1.87

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