genome.fa.s4.2.7.7.80.10.50.1000.103.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  103  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)
33098946--33098994	21	2.3	20	76	10	53	18	16	26	38	1.91
33105339--33105379	20	2.0	20	100	0	82	51	14	4	29	1.63
33106287--33106319	2	16.5	2	100	0	66	51	48	0	0	1.00
33112814--33112848	9	3.7	9	85	14	52	74	0	25	0	0.82
33122078--33122145	19	3.4	19	72	18	66	27	0	19	52	1.46
33122068--33122164	41	2.4	41	96	0	176	28	1	19	50	1.54
33130095--33130178	38	2.2	38	82	4	107	22	19	26	32	1.97
33133571--33134016	195	2.3	195	82	3	533	26	19	27	25	1.99
33145058--33145104	23	2.0	23	100	0	94	19	17	4	59	1.53
33145064--33145111	23	2.2	22	81	7	53	18	20	2	58	1.49
33145109--33145166	28	2.1	28	96	0	107	20	10	22	46	1.81
33147006--33147327	80	4.1	80	84	3	400	23	21	24	30	1.99
33148989--33149051	24	2.6	24	87	0	90	50	9	14	25	1.72
33150951--33151013	24	2.6	24	87	0	90	50	9	14	25	1.72
33151265--33151465	100	2.0	100	95	0	357	40	12	13	33	1.83
33152011--33152057	17	2.7	17	84	12	60	31	4	2	61	1.27
33161654--33161996	172	2.0	172	95	0	623	43	13	13	29	1.82
33167571--33167623	23	2.3	23	86	0	70	28	20	11	39	1.87
33169642--33169686	20	2.2	20	88	7	65	57	6	4	31	1.44
33178207--33178244	15	2.5	15	91	8	60	10	31	5	52	1.58
33206747--33206789	17	2.5	17	84	0	50	55	13	11	18	1.68
33214878--33214918	8	5.4	8	85	11	59	24	12	34	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33214878--33214924	16	3.1	15	84	12	60	27	12	31	27	1.93
33217337--33217559	52	4.3	52	91	0	347	24	12	26	36	1.91
33230503--33230545	18	2.4	18	80	0	50	30	23	18	27	1.98
33235724--33235762	17	2.3	17	86	0	51	56	7	15	20	1.63
33253517--33253547	12	2.6	12	94	0	53	45	3	41	9	1.53
33259153--33259335	41	4.1	43	68	23	112	39	7	1	50	1.41
33259157--33259331	93	1.9	96	89	6	277	40	8	1	49	1.42
33260824--33261017	93	2.0	96	93	6	331	40	9	23	26	1.85
33264743--33264788	10	4.3	11	86	8	60	78	0	21	0	0.76
33272480--33272526	16	3.0	16	79	14	53	2	21	0	76	0.89
33272546--33272580	16	2.2	16	94	0	61	17	22	11	48	1.79
33273465--33273496	15	2.1	16	94	5	57	6	28	0	65	1.16
33286029--33286060	16	2.1	16	94	5	57	46	25	0	28	1.53
33286013--33286088	38	2.0	38	92	0	125	47	22	0	30	1.52
33293412--33293463	27	1.9	27	92	0	86	19	17	38	25	1.93
33293550--33293610	29	2.1	29	87	0	86	50	4	0	44	1.23
33293575--33293646	36	2.1	35	92	5	119	45	2	2	48	1.31
33293584--33293662	36	2.2	35	81	2	86	55	2	2	39	1.27
33296898--33296949	14	3.7	14	76	5	52	26	0	21	51	1.47
33296947--33297011	14	4.6	14	76	5	60	29	0	20	50	1.48
33296906--33296984	35	2.3	34	82	2	86	30	0	18	50	1.47
33296898--33297005	49	2.2	49	85	6	139	28	0	20	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33297031--33297075	14	3.2	14	75	12	56	26	0	20	53	1.46
33297031--33297091	28	2.2	28	88	5	88	27	0	24	47	1.52
33299420--33299466	21	2.1	22	92	7	78	57	14	0	27	1.38
33299457--33299486	5	5.8	5	96	4	51	80	0	0	20	0.72
33299550--33299614	30	2.1	32	83	13	82	67	10	0	21	1.20
33299824--33299859	4	9.2	4	90	6	56	0	19	0	80	0.71
33300949--33300990	21	2.1	19	91	8	66	23	2	2	71	1.10
33309342--33309624	23	12.3	23	83	0	352	34	6	13	45	1.69
33309704--33309807	36	2.9	35	85	5	145	25	13	23	37	1.91
33312856--33312892	12	3.2	12	77	14	51	8	8	21	62	1.49
33312840--33312891	22	2.5	21	93	6	88	3	7	23	65	1.35
33312840--33312899	22	2.8	22	87	5	70	6	6	20	66	1.38
33312902--33312984	12	7.3	12	72	13	59	6	3	20	69	1.25
33312882--33312932	23	2.3	21	86	6	66	5	1	19	72	1.15
33312904--33312972	31	2.3	29	79	16	77	5	4	20	69	1.27
33324109--33324327	99	2.3	96	82	6	259	27	20	24	27	1.99
33324153--33324331	99	1.8	99	91	0	295	27	20	23	28	1.99
33326493--33326561	32	2.2	32	97	0	129	34	11	7	46	1.68
33329913--33329956	19	2.3	19	84	7	54	31	0	6	61	1.22
33334963--33335027	16	4.0	15	74	20	51	64	1	3	30	1.18
33335571--33335602	16	2.0	16	93	0	55	28	9	0	62	1.26
33343623--33343655	16	2.0	17	88	5	50	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33345300--33345371	22	3.4	21	71	21	69	36	2	11	50	1.53
33354515--33354546	3	10.7	3	100	0	64	34	31	0	34	1.58
33373826--33374061	52	4.6	52	88	0	348	34	24	14	26	1.94
33374604--33374639	18	2.1	16	90	10	54	30	16	0	52	1.44
33377762--33377792	3	10.3	3	92	0	53	70	0	29	0	0.87
33388729--33388817	36	2.5	36	83	0	106	40	25	4	29	1.75
33389662--33389717	28	2.0	28	85	0	76	41	10	17	30	1.84
33398134--33398216	38	2.2	38	82	2	105	32	26	9	31	1.88
33409990--33410034	21	2.1	21	84	8	56	31	11	22	35	1.89
33417125--33417176	21	2.5	21	79	17	63	25	13	28	32	1.93
33424397--33424429	12	2.8	12	90	0	57	27	24	0	48	1.51
33425339--33425390	24	2.2	24	96	0	95	26	15	21	36	1.93
33433248--33433303	20	2.7	21	78	15	55	41	14	0	44	1.45
33438811--33438849	20	2.0	20	85	10	53	38	10	0	51	1.36
33450027--33450078	18	2.6	21	76	17	65	17	11	11	59	1.60
33450037--33450090	18	3.1	18	83	5	74	16	11	12	59	1.61
33450037--33450090	17	3.1	17	86	2	72	16	11	12	59	1.61
33460928--33460969	19	2.2	19	100	0	84	45	4	28	21	1.72
33469263--33469331	36	1.9	36	81	0	84	40	21	10	27	1.85
33469386--33469415	8	3.9	8	91	8	53	36	26	0	36	1.57
33469386--33469414	15	1.9	15	100	0	58	34	27	0	37	1.57
33477860--33478306	52	8.6	52	91	0	714	27	14	23	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33481398--33481444	6	7.7	6	80	20	53	65	2	17	14	1.36
33483267--33483320	26	2.1	26	89	0	81	27	22	22	27	1.99
33483310--33483393	38	2.2	38	85	6	109	30	14	23	30	1.94
33483324--33483395	38	1.9	37	91	2	117	31	12	23	31	1.92
33484688--33484720	17	1.9	17	93	0	57	51	12	21	15	1.75
33488097--33488193	37	2.6	37	85	4	126	22	18	31	26	1.97
33491561--33491679	54	2.2	54	89	0	175	21	31	22	23	1.98
33492564--33492612	19	2.5	19	74	12	55	32	22	26	18	1.97
33494936--33495025	44	2.1	42	83	4	108	7	7	16	67	1.38
33494971--33495017	23	2.0	23	95	0	85	6	4	14	74	1.17
33494992--33495028	19	1.9	19	94	0	65	13	5	10	70	1.32
33495064--33495116	12	4.4	12	92	0	88	11	7	11	69	1.35
33495064--33495120	24	2.4	24	100	0	114	10	7	14	68	1.38
33495110--33495180	23	3.3	20	74	14	70	9	4	19	66	1.38
33495112--33495189	21	3.6	22	72	16	74	8	3	20	66	1.35
33495086--33495181	44	2.2	44	84	0	120	11	5	17	65	1.42
33495089--33495154	32	2.1	32	82	5	80	9	7	16	66	1.42
33496703--33496737	15	2.3	15	90	0	52	37	17	22	22	1.94
33496715--33496756	15	2.8	16	85	7	52	38	11	23	26	1.90
33501745--33502005	129	2.0	129	100	0	522	29	13	12	44	1.80
33502425--33502480	26	2.2	26	90	0	85	69	10	7	12	1.36
33512753--33512812	25	2.4	25	86	13	88	63	6	3	26	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33530952--33531182	116	2.0	114	97	1	435	30	9	22	38	1.85
33536876--33536915	14	2.9	13	79	13	53	25	5	0	70	1.08
33536873--33536949	39	2.0	38	82	7	93	20	3	3	71	1.18
33536895--33536955	20	3.0	20	74	25	58	16	3	8	72	1.23
33536969--33537052	3	28.3	3	83	11	93	27	5	1	65	1.23
33537054--33537091	16	2.4	16	86	8	51	21	7	0	71	1.11
33536869--33537106	9	25.2	9	67	18	51	22	4	4	68	1.27
33539322--33539377	11	5.5	10	81	6	51	80	1	12	5	0.96
33542101--33542228	26	5.0	26	79	9	136	25	15	23	35	1.94
33542105--33542228	51	2.4	51	84	8	153	26	15	23	34	1.94

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