genome.fa.s4.2.7.7.80.10.50.1000.174.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  174  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)
54279985--54280029	21	2.1	21	88	8	65	57	2	0	40	1.11
54295745--54295906	82	2.0	82	90	3	256	48	6	8	37	1.59
54296346--54296411	33	2.0	33	84	3	87	37	6	4	51	1.47
54296778--54296810	17	1.9	18	88	11	52	48	0	3	48	1.17
54297438--54297544	29	3.6	29	72	14	101	42	14	17	25	1.87
54297387--54297574	60	3.2	60	86	0	252	44	13	17	23	1.85
54302281--54302360	35	2.3	34	85	10	108	55	22	3	18	1.59
54303155--54303202	20	2.4	20	89	0	69	43	0	6	50	1.27
54303342--54303509	81	2.0	80	84	6	212	51	4	8	35	1.53
54303959--54303987	2	15.0	2	92	7	51	48	0	0	51	1.00
54306125--54306171	14	3.5	13	75	13	51	31	0	6	61	1.21
54312602--54312648	23	2.0	24	84	12	62	14	12	0	72	1.13
54312860--54312892	13	2.4	14	85	10	50	42	9	12	36	1.74
54322013--54322092	27	3.0	27	79	0	79	36	15	25	23	1.93
54323867--54323916	3	17.0	3	84	12	59	0	60	0	40	0.97
54323869--54323920	24	2.2	24	100	0	104	0	57	0	42	0.98
54324217--54324255	19	2.0	20	90	5	62	41	0	0	58	0.98
54324783--54324829	20	2.3	20	96	0	85	8	40	17	34	1.79
54327593--54327700	54	2.0	54	98	0	207	37	3	12	46	1.59
54340100--54340141	18	2.3	19	87	4	59	71	2	2	23	1.10
54340100--54340142	19	2.3	19	84	8	52	72	2	2	23	1.08
54343199--54343267	17	4.0	17	88	3	102	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54343187--54343263	24	3.3	23	80	5	84	44	0	1	54	1.08
54343198--54343278	6	13.8	6	74	10	78	49	0	0	50	1.00
54343204--54343278	18	4.3	17	89	3	96	49	0	0	50	1.00
54344123--54344165	3	13.7	3	80	9	50	60	0	2	37	1.10
54344120--54344170	19	2.7	19	84	9	68	58	0	1	39	1.09
54344607--54344874	29	9.3	28	71	11	150	35	23	2	37	1.71
54344596--54344841	58	4.3	54	78	10	186	36	22	2	38	1.67
54344647--54344860	58	3.7	57	79	7	218	37	22	3	36	1.71
54344683--54344860	57	3.1	57	79	10	150	37	23	3	35	1.73
54349085--54349127	6	7.2	6	89	0	59	20	30	0	48	1.50
54355988--54356129	10	14.4	10	66	21	52	62	1	4	30	1.25
54355987--54356129	39	3.7	38	76	15	116	62	1	4	31	1.25
54356114--54356170	18	2.8	21	76	15	66	64	3	7	24	1.34
54355990--54356146	29	5.3	29	68	14	90	62	1	5	30	1.26
54356350--54356489	9	14.4	9	67	13	55	30	3	2	62	1.26
54356350--54356455	20	5.4	20	73	12	69	33	2	2	60	1.26
54358187--54358220	13	2.6	13	100	0	68	20	0	26	52	1.46
54358616--54358653	9	4.2	9	89	0	58	31	10	10	47	1.72
54358973--54359018	17	2.6	17	79	3	56	39	13	8	39	1.75
54359401--54359518	58	2.0	58	100	0	236	21	8	26	44	1.80
54361438--54361581	10	14.5	10	66	18	52	63	2	4	29	1.24
54361803--54361939	9	14.4	9	68	13	60	29	4	3	62	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54362043--54362272	89	2.6	89	79	6	252	38	8	16	36	1.79
54366133--54366215	42	2.0	42	88	4	123	30	0	21	48	1.51
54374102--54374231	58	2.2	58	85	5	165	39	3	24	32	1.73
54374190--54374300	29	3.8	29	78	7	98	42	0	18	37	1.57
54374190--54374320	30	4.4	29	79	6	129	41	0	19	38	1.57
54374197--54374320	59	2.1	59	92	3	205	40	0	18	40	1.56
54374225--54374321	30	3.3	30	83	2	142	39	1	16	43	1.55
54375352--54375401	26	1.9	26	83	0	64	46	2	0	52	1.12
54376051--54376093	17	2.5	17	92	0	68	46	0	0	53	1.00
54376679--54376737	6	9.8	6	73	14	50	38	5	1	54	1.33
54376695--54376721	14	1.9	14	100	0	54	37	11	0	51	1.37
54377425--54377472	25	2.0	24	84	12	62	52	4	6	37	1.46
54377475--54377517	14	3.1	14	80	3	52	60	0	0	39	0.97
54378514--54378944	59	7.4	59	85	3	548	33	28	2	35	1.72
54378514--54378943	117	3.7	118	84	3	555	33	28	2	35	1.72
54391211--54391489	38	7.3	38	69	18	213	34	13	19	32	1.91
54391194--54391750	76	7.0	76	82	11	697	33	15	18	32	1.92
54391249--54391527	38	7.3	38	66	25	162	33	15	19	31	1.93
54391504--54391551	24	2.0	24	100	0	96	29	20	12	37	1.90
54391276--54391748	252	1.9	251	94	1	840	33	15	18	32	1.92
54391428--54391627	100	2.0	100	97	0	373	32	16	17	34	1.92
54391577--54391701	38	3.3	38	74	12	148	35	14	17	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54391352--54391701	176	2.0	176	97	0	655	32	15	18	33	1.92
54392034--54392092	6	9.8	6	73	14	50	38	5	1	54	1.33
54392050--54392076	14	1.9	14	100	0	54	37	11	0	51	1.37
54392774--54392821	25	2.0	24	84	12	62	52	4	6	37	1.46
54392824--54392866	14	3.1	14	80	3	52	60	0	0	39	0.97
54393881--54394274	29	13.5	29	67	21	164	33	27	2	36	1.71
54393852--54394274	58	7.2	59	87	2	570	33	27	2	36	1.70
54393852--54394274	117	3.6	117	87	0	607	33	27	2	36	1.70
54393852--54394280	175	2.4	175	86	3	612	33	28	2	35	1.71
54395685--54395799	58	2.0	58	92	0	194	46	21	0	32	1.52
54399641--54399678	20	1.9	20	88	0	58	13	7	0	78	0.94
54400039--54400166	56	2.2	58	90	5	206	37	9	9	43	1.69
54400039--54400149	29	3.9	29	69	13	86	37	9	10	41	1.73
54400482--54400540	31	1.9	31	89	0	91	47	10	6	35	1.64
54402628--54402680	27	2.0	27	85	7	72	60	1	7	30	1.35
54404115--54404160	3	15.3	3	100	0	92	32	0	0	67	0.91
54409984--54410565	219	2.6	221	79	8	623	45	5	3	46	1.42
54413391--54413427	19	1.9	19	89	10	58	43	0	2	54	1.14
54414681--54414722	4	10.5	4	94	0	66	26	4	23	45	1.73
54417081--54417106	2	13.0	2	100	0	52	0	50	0	50	1.00
54418804--54418833	12	2.4	13	88	11	53	63	0	0	36	0.95
54429099--54429154	29	1.9	29	82	13	71	35	0	10	53	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54429855--54429893	15	2.5	15	87	4	51	56	2	0	41	1.13
54441029--54441218	97	2.0	97	84	2	247	42	25	7	24	1.81
54444388--54444417	14	2.1	14	93	0	51	26	43	16	13	1.85
54445347--54445386	20	2.1	19	85	4	53	5	25	0	70	1.08
54445356--54445395	3	13.7	3	85	15	57	0	30	0	70	0.88
54453587--54453628	21	2.0	21	81	9	50	71	19	4	4	1.22
54455697--54455721	9	2.8	9	100	0	50	20	44	0	36	1.52
54473607--54473684	26	2.9	26	78	14	79	50	0	2	47	1.15
54477856--54477883	11	2.5	11	100	0	56	67	0	0	32	0.91
54478880--54478928	21	2.3	22	86	10	75	67	0	2	30	1.02
54479512--54479638	60	2.1	61	85	1	166	44	13	3	39	1.60
54481478--54481557	12	6.9	12	81	4	76	68	22	3	5	1.25
54481475--54481571	23	4.3	23	77	8	85	67	24	4	4	1.26
54481478--54481557	35	2.3	35	84	0	97	68	22	3	5	1.25
54481561--54481654	22	4.5	21	75	12	70	70	18	4	7	1.28
54481476--54481602	29	4.3	30	73	14	104	69	21	3	5	1.26
54486757--54486781	3	8.3	3	100	0	50	0	0	68	32	0.90
54495527--54495717	18	10.6	18	77	0	166	49	29	16	4	1.66
54495523--54495717	36	5.4	36	84	0	219	49	28	17	4	1.66
54495729--54495780	12	4.3	12	83	9	61	26	55	15	1	1.50
54495747--54495780	6	5.7	6	96	0	59	29	55	14	0	1.40
54495729--54495780	18	2.8	19	80	8	63	26	55	15	1	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54497105--54497155	24	2.1	24	88	0	75	23	11	11	52	1.70
54497113--54497165	24	2.2	24	82	0	61	28	13	13	45	1.80
54504787--54504822	15	2.3	16	90	4	56	47	0	2	50	1.15
54506312--54506450	31	4.6	31	78	8	128	48	8	16	26	1.75
54509196--54509256	25	2.5	23	72	15	59	42	6	6	44	1.56
54510326--54510359	3	11.3	3	100	0	68	32	0	0	67	0.91
54512184--54512208	6	4.2	6	100	0	50	48	32	20	0	1.50
54516032--54516061	15	2.0	15	93	0	51	20	13	10	56	1.65
54518949--54519019	35	2.0	35	94	0	124	29	15	33	21	1.94
54522692--54522737	11	4.4	11	74	20	53	43	2	0	54	1.12

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