genome.fa.s4.2.7.7.80.10.50.1000.187.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  187  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)
58296193--58296240	21	2.3	21	81	0	60	16	20	29	33	1.95
58295934--58296423	255	1.9	257	92	1	822	23	19	27	29	1.98
58296397--58296444	21	2.3	21	92	0	78	16	16	33	33	1.92
58296192--58296648	105	4.4	104	78	4	435	23	19	27	29	1.98
58296502--58296549	21	2.3	21	85	7	62	18	22	27	31	1.97
58296192--58296651	210	2.2	204	83	4	539	23	19	27	29	1.98
58297030--58297593	282	2.0	282	98	0	1092	27	18	18	35	1.95
58301555--58301720	55	2.9	55	80	6	172	31	19	9	40	1.82
58301771--58301849	20	4.0	20	75	9	72	67	2	0	30	1.04
58301777--58301840	14	5.0	12	74	20	58	67	3	0	29	1.06
58301780--58301863	41	2.2	39	85	8	109	63	2	0	34	1.08
58301951--58302047	49	2.0	50	85	2	133	39	9	17	34	1.82
58302002--58302275	55	4.7	57	76	11	247	43	10	16	29	1.82
58302006--58302230	120	1.9	120	85	3	319	45	10	15	29	1.78
58304229--58304268	7	5.3	7	83	16	53	77	2	0	20	0.88
58304229--58304268	15	2.6	14	85	14	53	77	2	0	20	0.88
58304284--58304325	8	4.8	9	83	13	52	69	2	0	28	1.01
58304292--58304348	19	2.9	19	75	12	62	64	1	1	31	1.13
58305228--58305268	19	2.2	19	90	0	64	36	7	2	53	1.42
58308060--58308121	27	2.3	26	75	13	63	32	0	6	61	1.21
58308198--58308282	44	1.9	44	85	0	116	40	7	2	50	1.42
58312577--58312826	126	2.0	128	83	6	327	35	16	18	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58315714--58315762	14	3.5	13	81	13	62	44	18	2	34	1.61
58316693--58316744	26	2.0	25	82	14	61	42	3	15	38	1.65
58317113--58317160	15	3.3	15	77	11	55	50	0	2	47	1.12
58317957--58317996	2	20.0	2	100	0	80	50	0	0	50	1.00
58318698--58318806	56	1.9	56	81	7	132	30	28	12	28	1.93
58326193--58326220	14	2.0	14	100	0	56	85	0	14	0	0.59
58327849--58327873	11	2.3	11	100	0	50	28	36	8	28	1.85
58332051--58332106	23	2.4	23	96	0	103	48	16	26	8	1.75
58344630--58344662	15	2.1	17	88	11	52	57	0	9	33	1.30
58347804--58347830	6	4.5	6	100	0	54	18	18	48	14	1.82
58355892--58355931	19	2.2	18	86	13	55	32	0	2	65	1.06
58359037--58359211	93	1.9	93	81	7	212	37	21	21	19	1.94
58370796--58370858	30	2.1	31	87	3	92	44	0	1	53	1.10
58371025--58371080	16	3.6	16	76	11	53	50	0	1	48	1.11
58375056--58375195	51	2.7	51	83	6	160	38	7	17	35	1.79
58377413--58377473	31	2.0	31	96	0	113	14	21	9	54	1.69
58390581--58390736	84	1.9	82	84	5	206	35	17	10	37	1.84
58390833--58390940	29	3.7	28	71	13	85	61	1	3	33	1.25
58391197--58391280	10	9.0	9	74	19	66	32	0	1	66	0.99
58391197--58391230	11	3.2	11	87	4	52	29	0	0	70	0.87
58391486--58391653	89	1.9	89	80	7	198	39	8	14	37	1.77
58395913--58395953	16	2.6	16	88	0	55	26	26	0	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58396076--58396126	15	3.3	15	81	5	57	54	23	7	13	1.65
58396059--58396126	31	2.2	30	79	7	73	54	22	5	17	1.64
58397213--58397254	19	2.1	19	86	8	57	38	0	2	59	1.10
58397421--58397492	31	2.4	31	86	6	94	58	18	6	16	1.60
58397947--58398006	21	2.8	23	76	21	67	58	1	0	40	1.08
58397982--58398046	32	2.0	33	85	11	91	47	0	1	50	1.10
58398762--58398806	21	2.1	21	88	8	65	26	11	35	26	1.90
58400816--58400864	16	3.2	16	77	16	68	36	0	4	59	1.17
58401055--58401405	93	3.8	94	91	3	534	49	12	1	36	1.52
58401056--58401405	187	1.9	183	89	3	549	49	12	1	36	1.52
58401379--58401418	21	2.0	20	90	5	62	62	10	0	27	1.27
58401514--58401560	19	2.5	19	75	6	51	68	8	2	21	1.27
58402496--58402653	78	2.0	78	100	0	316	20	13	11	53	1.71
58403644--58403707	10	6.1	10	79	16	76	50	12	7	29	1.68
58403632--58403701	33	2.2	32	97	2	131	50	15	5	28	1.67
58409095--58409137	18	2.4	18	80	7	52	51	0	2	46	1.13
58415515--58415554	21	1.9	21	90	10	64	52	0	0	47	1.00
58417625--58417664	6	6.7	6	100	0	80	0	15	0	85	0.61
58417756--58417798	14	3.1	14	90	6	61	0	39	0	60	0.97
58421559--58421592	6	5.7	6	100	0	68	32	17	50	0	1.47
58422146--58422188	17	2.6	17	85	3	52	65	2	0	32	1.06
58445540--58445615	36	2.1	36	95	0	134	27	9	25	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58446890--58446940	24	2.1	24	92	0	84	23	11	9	54	1.66
58446898--58446957	24	2.5	24	83	0	75	28	13	10	48	1.74
58450595--58450760	23	7.4	23	72	14	123	43	21	23	11	1.85
58450601--58450675	39	1.9	39	91	0	123	44	21	22	12	1.85
58450640--58450760	48	2.6	46	82	7	145	41	22	24	11	1.87
58452770--58452821	22	2.4	22	81	9	63	61	5	1	30	1.30
58460080--58460115	18	1.9	19	88	5	56	27	0	8	63	1.23
58460080--58460141	19	3.4	18	73	18	56	30	0	4	64	1.14
58460304--58460352	15	3.4	14	81	15	55	73	2	0	24	0.94
58466473--58466498	6	4.3	6	100	0	52	0	50	0	50	1.00
58494600--58494853	29	8.8	29	80	4	237	40	24	12	22	1.88
58494595--58494853	58	4.5	57	81	4	261	40	24	11	23	1.88
58495195--58495236	15	2.8	16	82	7	52	28	30	16	23	1.96
58504287--58504317	15	2.1	15	100	0	62	41	6	6	45	1.55
58505305--58505342	18	2.1	19	90	5	60	36	0	0	63	0.95
58506810--58506854	22	2.0	22	86	0	63	75	0	0	24	0.80
58508848--58508893	24	1.9	24	81	0	56	36	4	2	56	1.31
58512627--58512686	29	2.0	29	87	9	86	51	0	28	20	1.47
58518355--58518632	112	2.5	111	79	9	296	30	17	17	33	1.94
58518345--58518833	58	8.5	58	77	10	445	30	17	16	35	1.92
58519358--58519447	29	3.1	30	88	4	130	62	4	6	26	1.39
58520533--58520604	36	2.0	36	86	5	101	56	4	5	33	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58520530--58520739	88	2.4	87	91	3	332	58	4	6	30	1.44
58520766--58520813	20	2.4	20	82	0	69	64	2	4	29	1.23
58520760--58520815	20	2.8	20	81	7	62	67	1	3	26	1.16
58522053--58522490	93	4.7	92	90	4	675	43	3	7	44	1.49
58522053--58522490	187	2.3	188	92	2	738	43	3	7	44	1.49
58522437--58522538	48	2.1	48	94	3	179	45	6	5	42	1.55
58535525--58535554	11	2.6	12	94	5	53	26	0	0	73	0.84
58536535--58536681	30	4.8	30	76	6	118	38	23	5	33	1.78
58536536--58536681	31	4.8	30	77	7	118	38	23	5	32	1.78
58540556--58540608	26	2.0	26	81	0	61	43	3	0	52	1.19
58542321--58542366	24	1.9	24	95	0	83	23	23	6	45	1.76
58544157--58544197	20	2.0	21	85	4	57	63	4	7	24	1.40
58561192--58561504	158	2.0	157	89	3	488	37	13	7	41	1.73
58561601--58561671	30	2.2	32	87	7	101	46	0	1	52	1.09
58561634--58561674	22	1.9	22	90	5	66	48	0	0	51	1.00
58561651--58561690	20	2.0	21	85	5	55	50	5	0	45	1.23
58561909--58561946	17	2.2	18	85	4	51	57	2	0	39	1.12
58565046--58565089	5	8.2	5	85	9	52	4	20	0	75	0.98
58567586--58567634	21	2.2	23	89	10	75	40	6	0	53	1.26
58567660--58567716	29	2.0	29	89	0	87	31	7	14	47	1.70
58570185--58570213	2	14.5	2	100	0	58	48	0	0	51	1.00
58581252--58581321	34	2.1	34	97	0	131	37	2	24	35	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58596232--58596270	17	2.3	17	86	8	53	46	23	12	17	1.83
58600560--58600615	27	2.1	27	83	6	69	60	8	3	26	1.43
58607856--58607987	61	2.1	63	84	5	171	45	9	3	42	1.51
58607856--58608007	62	2.5	61	82	6	164	44	10	2	42	1.52
58609217--58609276	16	3.8	16	78	8	59	50	13	10	26	1.73
58610586--58610634	25	2.0	25	84	8	64	59	4	8	28	1.45
58612440--58612571	59	2.2	57	84	5	165	50	6	2	41	1.40
58612495--58612546	22	2.3	23	70	6	54	53	3	1	40	1.30
58639541--58639609	31	2.3	30	78	9	77	31	0	4	63	1.14
58639580--58639624	19	2.4	19	81	7	56	37	0	4	57	1.19

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