genome.fa.s4.2.7.7.80.10.50.1000.191.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  191  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)
59740125--59740157	16	2.1	16	88	11	50	63	0	6	30	1.18
59744095--59744215	23	5.2	23	81	15	149	12	25	22	39	1.89
59744095--59744215	48	2.6	46	86	10	165	12	25	22	39	1.89
59744180--59744254	39	1.9	39	91	0	123	12	22	21	44	1.85
59745405--59746000	18	32.4	18	68	18	211	43	0	3	51	1.25
59745414--59745998	22	26.1	22	64	23	149	43	0	3	51	1.25
59745432--59745702	30	8.6	31	72	17	168	44	0	3	51	1.23
59745524--59745609	12	7.2	12	79	13	65	48	0	0	51	1.00
59745598--59745787	86	2.2	86	96	1	348	42	1	4	52	1.28
59745798--59746032	86	2.7	86	98	0	454	44	1	3	50	1.28
59745679--59746000	86	3.4	96	82	13	378	44	0	3	51	1.25
59745405--59745978	190	3.0	189	76	14	481	44	0	3	51	1.25
59745405--59746000	10	58.8	10	68	20	150	43	0	3	51	1.25
59745818--59746028	28	7.4	27	70	25	134	45	1	3	49	1.29
59746158--59746224	33	2.1	32	88	2	98	44	5	7	41	1.57
59751482--59751534	21	2.5	21	90	0	79	32	18	47	1	1.60
59751741--59751772	15	2.2	14	94	5	55	21	0	31	46	1.52
59755059--59755117	19	2.9	21	76	19	54	61	0	0	38	0.96
59755076--59755117	15	2.8	16	79	17	54	64	0	0	35	0.94
59757072--59757102	11	2.7	11	95	5	53	35	0	0	64	0.94
59763515--59764251	365	2.0	366	90	1	1174	32	20	14	32	1.92
59766675--59766771	29	3.3	29	77	12	81	62	1	5	30	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59766724--59766771	6	8.0	6	79	9	53	64	2	0	33	1.05
59766663--59766770	29	3.6	30	78	12	80	62	0	4	32	1.22
59766698--59766765	23	3.0	23	78	8	68	66	1	1	30	1.10
59770612--59770680	30	2.3	30	82	5	77	23	8	5	62	1.46
59770621--59770690	30	2.3	30	82	2	77	20	8	5	65	1.40
59777344--59777380	17	2.3	17	86	9	51	59	0	2	37	1.12
59777730--59777771	20	2.1	20	90	0	66	66	0	0	33	0.92
59780991--59781169	39	4.6	39	77	5	157	35	17	17	29	1.93
59780985--59781169	77	2.4	78	80	6	205	34	17	17	30	1.93
59787986--59788025	19	2.2	18	86	8	55	65	17	5	12	1.44
59789345--59789392	21	2.4	20	80	16	55	56	2	2	39	1.23
59792831--59792864	16	2.1	16	89	10	52	52	5	0	41	1.25
59794125--59794153	2	15.0	2	92	7	51	51	0	0	48	1.00
59797991--59798125	40	3.4	38	73	12	96	30	28	20	21	1.98
59798023--59798126	37	2.7	38	76	5	93	31	26	19	22	1.97
59798962--59799011	2	25.0	2	91	0	82	46	0	4	50	1.20
59805870--59805967	9	10.4	9	75	14	83	63	4	3	29	1.28
59806390--59806429	21	2.0	20	85	5	53	40	0	0	60	0.97
59806426--59806490	20	3.2	21	72	16	57	44	1	1	52	1.19
59818318--59818351	3	11.0	3	87	6	50	67	2	29	0	1.05
59820149--59820189	12	3.4	12	82	0	55	24	24	0	51	1.49
59820582--59820967	193	2.0	192	94	0	682	37	8	22	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59820955--59820990	16	2.1	16	90	10	54	44	0	0	55	0.99
59821435--59821477	15	2.8	16	75	7	52	34	13	0	51	1.42
59824750--59825555	415	1.9	416	94	2	1424	31	16	14	37	1.89
59847218--59847266	27	1.9	27	84	12	68	48	4	0	46	1.20
59849906--59849947	22	2.0	21	85	4	57	47	0	0	52	1.00
59854493--59854544	24	2.2	24	89	0	77	59	5	1	32	1.32
59862298--59862323	2	13.0	2	100	0	52	50	0	0	50	1.00
59864434--59864459	3	8.7	3	100	0	52	69	0	0	30	0.89
59878417--59878456	2	20.0	2	100	0	80	50	0	0	50	1.00
59883336--59883389	10	5.4	10	82	8	65	77	1	3	16	1.00
59883344--59883395	9	5.4	9	78	13	50	78	1	5	13	1.01
59883336--59883381	21	2.2	21	84	3	67	76	2	2	19	1.00
59883581--59883639	29	2.0	30	90	3	93	28	5	15	50	1.65
59883586--59883648	29	2.1	29	85	8	83	33	6	12	47	1.67
59884940--59884986	22	2.1	22	84	0	58	10	10	4	74	1.20
59886680--59886775	41	2.6	35	75	22	88	19	3	5	71	1.18
59886728--59886778	24	2.3	22	78	21	61	19	3	3	72	1.16
59886680--59886775	11	7.7	11	71	26	68	19	3	5	71	1.18
59890678--59890723	23	2.0	23	91	0	74	8	26	21	43	1.81
59890718--59890797	23	3.5	22	83	5	97	12	18	28	40	1.87
59891274--59891304	15	2.1	14	94	5	53	41	6	6	45	1.55
59891701--59891733	14	2.3	15	94	5	59	39	6	18	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59892686--59892755	23	3.0	23	91	0	113	8	18	22	50	1.74
59892692--59892768	23	3.3	23	88	0	109	9	19	22	49	1.76
59893284--59893313	15	2.1	14	93	6	51	40	6	6	46	1.56
59893711--59893743	14	2.3	15	94	5	59	39	6	18	36	1.75
59901186--59901248	21	2.8	22	78	9	65	33	3	7	55	1.45
59901369--59901472	49	2.1	48	94	1	181	50	5	3	39	1.44
59907520--59907544	12	2.1	12	100	0	50	24	16	8	52	1.70
59907967--59908071	52	2.0	52	85	3	140	38	1	8	51	1.44
59909652--59909826	62	2.8	63	85	3	228	35	34	6	24	1.80
59910067--59910249	36	5.1	36	79	4	154	35	24	23	16	1.95
59918611--59918706	48	2.0	48	100	0	192	39	16	16	27	1.90
59922922--59923007	26	3.2	27	82	9	97	37	0	5	56	1.23
59929627--59929652	4	6.5	4	100	0	52	53	0	0	46	1.00
59934870--59934928	28	2.1	27	82	14	68	67	10	0	22	1.20
59936482--59936551	29	2.3	29	83	9	79	35	2	5	55	1.38
59936674--59936742	31	2.3	30	83	14	88	47	10	7	34	1.65
59937161--59937245	31	2.8	29	76	11	82	38	10	9	41	1.72
59938487--59938611	52	2.4	52	81	5	162	19	2	29	48	1.61
59947615--59947712	38	2.6	38	81	3	126	37	31	10	20	1.86
59951320--59951385	21	3.2	20	67	16	53	30	36	12	21	1.90
59953391--59953419	6	4.8	6	100	0	58	51	31	0	17	1.45
59971709--59971757	20	2.5	19	77	6	53	63	4	2	30	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59980953--59980995	21	2.0	22	81	9	52	30	2	2	65	1.18
59992001--59992037	2	18.5	2	100	0	74	48	0	0	51	1.00
59993324--59993362	2	20.0	2	94	5	71	48	0	0	51	1.00
59994718--59994768	22	2.2	24	83	13	63	41	3	0	54	1.19
59994739--59994800	27	2.3	27	86	8	81	37	6	0	56	1.25
59998068--59998106	19	2.1	19	100	0	78	58	15	15	10	1.62
60004420--60004490	24	3.0	24	83	4	74	57	9	8	23	1.58
60008593--60008624	16	1.9	17	93	6	57	59	0	3	37	1.13
60008918--60009102	90	2.1	89	79	6	205	39	14	10	35	1.80
60009274--60009343	10	7.6	9	75	16	63	68	1	0	30	0.98
60009274--60009343	19	3.8	19	76	10	58	68	1	0	30	0.98
60013002--60013053	23	2.2	24	83	12	65	30	0	1	67	1.02
60013343--60013399	30	1.9	29	86	10	80	29	7	0	63	1.21
60013693--60013724	17	1.9	16	93	6	55	56	0	0	43	0.99
60023571--60023604	2	17.0	2	100	0	68	0	0	50	50	1.00
60033444--60033488	5	9.0	5	85	9	65	24	0	35	40	1.56
60033876--60033908	17	1.9	17	93	0	57	21	3	0	75	0.93
60039817--60039884	24	2.8	23	72	14	57	32	0	19	48	1.49
60040991--60041036	2	23.0	2	86	0	65	47	2	47	2	1.26
60044536--60044560	6	4.2	6	100	0	50	16	16	36	32	1.90
60047908--60047946	18	2.1	19	85	4	53	58	7	2	30	1.39
60059399--60059481	31	2.8	30	83	7	89	44	1	1	53	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60059356--60059481	29	4.3	29	76	11	98	45	1	1	51	1.20
60059410--60059490	31	2.7	29	83	9	92	40	1	1	56	1.15
60060987--60061033	20	2.3	20	78	7	51	59	0	2	38	1.09
60062110--60062154	20	2.2	21	84	11	58	37	0	4	57	1.19
60071523--60071638	59	2.0	59	84	3	153	34	5	25	35	1.78
60071499--60071731	29	8.1	29	76	9	174	33	4	27	34	1.78
60073787--60074085	59	5.1	59	82	7	322	35	2	23	38	1.68
60073787--60074073	89	3.2	87	84	6	344	35	2	22	39	1.68
60073787--60074085	30	10.1	29	79	7	273	35	2	23	38	1.68
60074498--60074588	36	2.5	36	90	0	146	28	24	23	24	1.99

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