genome.fa.s4.2.7.7.80.10.50.1000.162.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  162  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)
50255353--50255415	18	3.4	18	88	4	90	60	3	0	36	1.13
50261440--50261506	31	2.2	30	83	5	80	37	2	7	52	1.45
50269821--50269852	2	16.0	2	93	0	55	46	0	3	50	1.17
50273901--50274020	60	2.0	60	95	0	213	28	12	11	47	1.76
50276341--50276388	21	2.2	22	92	7	89	45	8	8	37	1.64
50276869--50277037	12	14.8	12	70	15	81	68	21	4	5	1.28
50276813--50277069	44	5.8	44	71	12	127	67	20	3	8	1.33
50276869--50277037	24	7.4	24	70	16	126	68	21	4	5	1.28
50277023--50277086	29	2.2	30	83	5	87	71	20	1	6	1.15
50276828--50277072	111	2.2	110	95	1	438	67	20	4	7	1.34
50277060--50277094	17	2.1	17	94	0	61	71	20	5	2	1.19
50277080--50277145	22	3.0	22	82	6	80	63	16	7	12	1.50
50277081--50277149	10	6.4	10	76	15	66	66	14	7	11	1.43
50277063--50277133	22	3.5	20	76	14	67	66	16	7	9	1.43
50277144--50277196	21	2.4	22	81	9	63	69	26	3	0	1.05
50279746--50279795	21	2.4	20	83	9	64	20	4	4	72	1.18
50302653--50302704	27	1.9	27	92	0	86	46	19	17	17	1.85
50307255--50307298	1	44.0	1	90	0	70	4	95	0	0	0.27
50307779--50307849	30	2.4	30	83	4	81	29	25	7	38	1.82
50311860--50311885	2	13.0	2	100	0	52	50	0	0	50	1.00
50314169--50314197	13	2.1	14	93	6	51	34	13	20	31	1.92
50316156--50316216	31	2.0	31	83	0	77	42	11	13	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50316331--50317005	333	2.0	332	99	0	1332	39	17	16	26	1.90
50316867--50317199	113	3.0	111	84	2	423	42	14	15	27	1.85
50317717--50317825	37	3.2	37	63	24	92	35	11	11	42	1.76
50317702--50317836	66	2.0	66	97	0	252	34	9	11	43	1.74
50318218--50318275	26	2.3	26	87	3	82	20	25	10	43	1.84
50318550--50318594	22	2.0	22	87	8	65	37	0	0	62	0.96
50318566--50318612	22	2.0	25	80	16	55	36	0	0	63	0.94
50328891--50328919	3	9.7	3	100	0	58	0	31	0	68	0.89
50333114--50333153	16	2.5	17	84	12	57	27	27	22	22	1.99
50334289--50334320	16	2.0	16	100	0	64	37	12	6	43	1.68
50339838--50340131	162	1.8	160	91	4	493	23	9	18	48	1.76
50363580--50364124	205	2.7	201	80	7	583	32	25	11	30	1.91
50373314--50373355	19	2.2	19	86	0	57	26	0	4	69	1.08
50375809--50375844	18	1.9	19	88	5	56	47	5	5	41	1.50
50378971--50379069	23	4.3	23	94	0	162	43	20	23	13	1.86
50380973--50381022	25	2.0	25	96	0	91	42	18	8	32	1.79
50388262--50388294	17	1.9	17	100	0	66	42	3	30	24	1.70
50389164--50389201	19	2.0	20	89	5	60	28	0	28	42	1.56
50389767--50389814	25	2.0	24	83	4	60	25	2	12	60	1.43
50395951--50396021	31	2.3	32	82	7	92	23	22	21	32	1.98
50398244--50398275	15	2.1	15	94	0	55	34	0	6	59	1.23
50405417--50405515	53	1.9	51	83	4	126	38	7	9	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50411427--50411470	17	2.5	17	85	7	52	47	0	0	52	1.00
50411721--50411763	19	2.3	19	84	11	54	65	0	2	32	1.06
50415322--50415773	173	2.6	173	88	0	679	36	20	13	30	1.90
50420862--50420967	52	2.0	52	98	0	203	43	18	16	20	1.88
50426605--50426709	41	2.5	42	89	3	158	55	11	12	20	1.68
50427223--50427261	19	2.1	19	85	0	51	17	5	2	74	1.12
50428428--50428453	11	2.4	11	100	0	52	34	0	0	65	0.93
50431852--50432710	180	4.7	180	91	4	1345	49	13	9	27	1.73
50433827--50433991	90	1.8	90	84	5	226	42	11	16	29	1.84
50435860--50435928	29	2.3	29	82	2	84	43	15	5	34	1.71
50440444--50440505	31	2.0	31	100	0	124	48	12	12	25	1.77
50440446--50440514	31	2.3	29	90	9	104	49	11	14	24	1.77
50441100--50441563	185	2.5	182	80	8	546	42	22	8	26	1.83
50442270--50442313	2	22.0	2	95	0	79	47	0	52	0	1.00
50442822--50442846	13	1.9	13	100	0	50	24	12	16	48	1.79
50446215--50446289	33	2.3	33	83	4	89	36	0	0	64	0.94
50446247--50446320	27	2.7	27	74	18	71	33	1	0	64	1.02
50446252--50446326	24	3.1	24	74	12	66	33	1	0	65	1.01
50446472--50446514	18	2.4	18	77	14	54	37	4	0	58	1.19
50446479--50446544	31	2.2	29	86	10	89	36	4	0	59	1.18
50446958--50447393	94	4.7	92	79	10	426	32	11	16	38	1.85
50467293--50467330	19	2.1	18	90	5	58	47	2	0	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50476197--50476416	109	2.0	109	95	0	395	31	8	28	31	1.86
50480763--50480806	18	2.4	19	85	11	56	13	6	0	79	0.92
50482418--50482494	31	2.6	28	76	12	73	49	10	9	31	1.68
50482749--50482780	16	2.0	16	93	0	55	53	0	0	46	1.00
50482752--50482820	29	2.5	28	76	19	74	49	0	0	50	1.00
50483455--50483484	12	2.5	12	94	0	51	23	0	6	70	1.11
50484472--50484507	2	18.0	2	100	0	72	50	0	50	0	1.00
50486735--50486775	21	2.0	21	85	0	55	39	7	0	53	1.29
50488498--50488588	38	2.4	39	83	9	116	51	2	0	46	1.13
50489084--50489119	2	18.0	2	100	0	72	50	0	0	50	1.00
50490689--50490750	32	1.9	32	90	0	97	56	4	4	33	1.42
50491374--50491437	30	2.2	29	91	2	101	18	39	0	42	1.51
50491550--50491629	32	2.6	31	84	11	94	23	28	0	47	1.52
50493424--50493497	24	3.1	24	62	11	62	47	8	12	32	1.70
50493406--50493497	47	2.0	47	100	0	184	45	6	13	34	1.69
50519572--50519646	11	6.5	11	75	11	62	5	25	0	69	1.09
50519579--50519643	23	2.8	22	79	11	58	6	24	0	69	1.11
50520017--50520084	21	3.2	21	89	2	100	44	33	0	22	1.53
50520068--50520097	15	2.0	15	93	0	51	43	33	3	20	1.68
50520152--50520192	20	2.0	20	85	0	55	14	21	29	34	1.93
50521245--50521286	3	14.3	3	95	5	77	30	0	0	69	0.89
50524510--50524539	16	1.9	16	93	6	53	33	6	0	60	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50525033--50525092	30	2.0	30	90	6	95	56	0	1	41	1.09
50527363--50527392	3	10.0	3	100	0	60	33	0	33	33	1.58
50527352--50527401	12	4.2	12	86	0	55	32	6	38	24	1.79
50527850--50527882	14	2.3	15	89	5	50	69	3	6	21	1.24
50530225--50530249	3	8.3	3	100	0	50	32	36	0	32	1.58
50532771--50532797	14	1.9	14	100	0	54	81	0	18	0	0.69
50536948--50537511	293	1.9	294	91	0	923	33	16	18	30	1.94
50549067--50549764	231	3.0	231	93	1	1175	36	20	15	27	1.93
50551150--50551195	23	2.0	23	100	0	92	17	13	47	21	1.81
50555128--50555174	21	2.2	21	92	0	76	17	19	10	53	1.72
50555793--50555819	6	4.5	6	100	0	54	33	0	14	51	1.43
50557297--50557323	13	2.1	13	100	0	54	29	7	33	29	1.85
50557433--50557478	23	2.0	23	100	0	92	17	13	17	52	1.75
50573677--50573717	19	2.1	20	86	4	57	51	7	0	41	1.30
50573735--50573779	9	4.9	9	88	2	54	73	0	0	26	0.84
50574929--50574995	29	2.2	32	86	7	95	38	4	7	49	1.51
50577619--50577667	23	2.1	23	81	7	55	63	4	8	24	1.40
50581553--50581794	6	38.7	6	68	8	65	32	7	17	42	1.76
50581658--50581810	76	2.0	75	86	5	209	31	7	16	43	1.77
50581561--50581780	112	2.0	111	84	3	289	31	7	18	42	1.77
50581839--50581875	6	6.5	6	87	12	60	51	16	0	32	1.45
50581841--50581875	16	2.2	16	100	0	70	51	17	0	31	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50586388--50586636	123	2.0	125	89	1	385	32	12	22	31	1.92
50588191--50588215	11	2.3	11	100	0	50	24	0	12	64	1.27
50589978--50590108	10	13.7	9	69	21	63	30	3	3	62	1.28
50589978--50590107	18	6.8	18	71	20	72	30	3	3	62	1.28
50591721--50591753	14	2.3	15	94	5	59	72	0	6	21	1.05
50591874--50591965	48	1.9	48	84	4	123	34	2	27	35	1.69
50591922--50592383	29	15.9	29	77	8	311	37	2	24	35	1.70
50591922--50592383	59	7.9	59	80	7	396	37	2	24	35	1.70
50592224--50592422	88	2.2	89	82	4	233	39	3	23	34	1.70
50598377--50598426	15	3.3	15	88	0	73	20	38	0	42	1.52

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