genome.fa.s4.2.7.7.80.10.50.1000.121.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  121  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)
38366481--38366521	15	2.6	16	81	14	50	29	0	0	70	0.87
38373022--38373066	10	4.4	10	77	5	54	60	4	6	28	1.42
38377118--38377144	2	13.5	2	100	0	54	51	0	0	48	1.00
38378876--38378938	30	2.1	30	100	0	126	12	0	44	42	1.42
38379510--38379761	85	3.0	85	86	0	324	23	23	15	37	1.93
38379606--38379888	133	2.1	133	91	0	458	22	24	13	38	1.91
38385187--38385221	16	2.2	16	94	0	61	22	37	14	25	1.92
38386718--38386967	7	37.0	7	67	15	55	43	21	5	29	1.74
38386719--38386837	47	2.5	47	86	2	168	42	21	6	29	1.78
38386743--38386945	27	7.5	26	72	9	122	43	21	5	29	1.75
38386694--38386775	20	4.1	20	77	14	80	47	21	4	25	1.71
38386766--38386816	20	2.5	20	93	0	84	41	17	9	31	1.82
38386786--38386903	60	2.0	61	86	6	170	43	22	5	28	1.76
38386806--38386967	20	8.0	20	64	7	58	45	23	3	27	1.70
38386806--38386889	33	2.5	34	82	9	109	44	25	3	27	1.70
38386907--38386987	20	4.0	20	74	7	56	45	24	3	25	1.70
38386952--38387006	20	2.8	20	83	8	76	40	25	9	25	1.85
38390841--38390915	39	1.9	39	100	0	150	41	6	17	34	1.76
38394207--38394238	16	1.9	17	93	6	57	68	3	0	28	1.04
38401977--38402095	29	4.0	29	75	9	107	33	5	29	31	1.81
38401991--38402095	30	3.6	29	80	3	111	32	5	29	32	1.81
38402141--38402242	29	3.4	28	76	9	87	37	3	19	39	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38413746--38413839	38	2.4	38	81	10	102	57	1	2	39	1.18
38413775--38413839	10	6.9	9	72	14	51	61	0	1	36	1.05
38413811--38413849	19	2.0	20	90	5	62	66	2	2	28	1.18
38414012--38414047	18	1.9	18	88	5	54	30	8	2	58	1.42
38414138--38414206	27	2.5	27	83	4	75	30	2	2	63	1.23
38414081--38414181	48	2.1	47	80	12	109	28	3	1	65	1.21
38414267--38414522	90	2.8	89	81	7	268	31	10	17	40	1.83
38414630--38414708	40	2.0	40	100	0	158	30	24	7	37	1.83
38414936--38414986	17	2.9	18	75	16	52	72	5	5	15	1.24
38420806--38420969	88	1.9	88	87	2	240	34	14	11	40	1.82
38421062--38421120	19	3.2	19	79	15	70	61	0	0	38	0.96
38421065--38421120	20	3.0	20	82	10	73	58	0	0	41	0.98
38421147--38421185	19	2.1	19	90	0	60	58	0	5	35	1.20
38421325--38421358	10	3.4	10	87	0	50	11	0	5	82	0.83
38421489--38421573	20	4.2	20	77	16	61	32	3	3	60	1.31
38422689--38422722	14	2.3	14	90	10	50	79	2	2	14	0.97
38422702--38422762	23	2.7	22	76	14	61	75	9	1	13	1.12
38422792--38422830	16	2.6	15	84	11	53	79	5	0	15	0.90
38422792--38422830	7	5.3	7	82	11	51	79	5	0	15	0.90
38422792--38422853	24	2.7	24	80	11	67	75	6	1	16	1.08
38422795--38422836	16	2.7	15	79	13	50	78	7	0	14	0.95
38422857--38422924	31	2.2	31	94	0	118	29	8	25	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38426629--38426747	51	2.3	51	92	2	195	39	0	8	51	1.38
38435422--38435496	24	3.1	24	84	0	105	25	9	8	57	1.57
38448528--38448567	18	2.2	19	86	4	55	25	2	5	67	1.23
38449585--38449614	14	2.2	13	94	5	51	33	0	20	46	1.51
38450933--38451024	23	4.0	23	86	0	121	15	20	20	43	1.88
38450934--38451073	69	2.0	66	85	13	185	14	22	19	44	1.86
38450900--38451073	23	7.5	23	76	12	115	13	22	18	44	1.86
38464988--38465013	13	2.0	13	100	0	52	53	15	7	23	1.67
38468727--38468761	8	4.1	8	86	13	52	82	0	2	14	0.77
38469870--38469910	20	2.1	19	86	13	57	75	2	2	19	1.03
38469916--38469944	2	15.0	2	92	7	51	48	0	0	51	1.00
38470340--38470375	17	2.1	17	89	0	54	61	2	0	36	1.11
38470712--38470840	49	2.6	49	86	0	177	24	20	17	38	1.93
38470861--38471828	49	19.7	49	75	6	589	17	29	17	35	1.93
38470861--38471765	99	9.2	99	79	5	764	17	29	17	35	1.93
38480872--38480912	20	2.1	19	86	13	57	75	2	2	19	1.03
38480921--38480964	18	2.4	18	88	0	61	34	0	11	54	1.36
38482792--38482834	18	2.3	19	84	4	61	32	0	4	62	1.15
38485038--38485368	30	11.2	29	79	6	310	34	3	27	34	1.73
38485035--38485372	58	5.7	57	78	11	312	34	3	28	33	1.74
38490812--38490926	56	2.0	57	91	1	187	32	0	19	48	1.49
38493499--38493741	29	8.2	29	78	11	237	36	2	25	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38494797--38494842	23	2.0	24	86	4	67	28	13	17	41	1.86
38503179--38503227	25	2.0	25	83	0	62	53	10	4	32	1.54
38504238--38504273	19	1.9	19	88	5	56	61	5	0	33	1.19
38504246--38504289	20	2.2	20	88	4	63	54	6	2	36	1.40
38509428--38509463	19	1.9	19	88	5	56	61	5	0	33	1.19
38510625--38510702	27	3.0	27	86	3	106	41	23	19	16	1.90
38510657--38510705	7	7.1	7	81	4	64	34	26	24	14	1.94
38510614--38510688	20	3.8	19	84	7	87	42	21	18	17	1.89
38510657--38510704	14	3.5	14	88	5	80	35	27	22	14	1.93
38514337--38514376	15	2.7	15	84	0	53	50	7	5	37	1.53
38516653--38516742	45	2.1	42	81	6	99	55	5	2	36	1.36
38516904--38516952	23	2.3	20	83	13	62	36	2	2	59	1.21
38517883--38517911	14	2.0	15	93	6	51	68	3	0	27	1.05
38518854--38518910	29	1.9	30	85	3	80	49	14	8	28	1.72
38519342--38519374	11	3.1	11	95	4	59	66	0	6	27	1.15
38525887--38525937	19	2.7	19	96	3	95	21	27	5	45	1.75
38526948--38527107	80	2.0	80	96	1	295	18	23	3	55	1.56
38531429--38531489	3	20.0	3	75	9	52	36	0	0	63	0.94
38531946--38532061	6	20.0	6	71	10	89	43	2	3	50	1.32
38531946--38532074	17	8.1	17	69	17	89	43	2	3	51	1.30
38532836--38532884	15	2.9	17	85	11	66	55	2	2	40	1.23
38539694--38539922	30	7.8	28	80	9	210	40	22	3	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38539707--38539949	59	4.1	57	81	11	242	39	21	3	35	1.71
38540201--38540382	96	1.9	96	84	4	242	29	19	14	36	1.91
38541822--38541884	30	2.2	30	83	11	78	50	4	3	41	1.39
38543900--38543940	15	2.7	15	92	0	64	34	14	31	19	1.92
38544700--38544733	18	1.9	18	88	5	52	41	41	0	17	1.50
38544779--38544848	28	2.6	26	76	10	77	30	0	24	45	1.53
38547494--38547534	19	2.3	18	88	12	59	51	0	0	48	1.00
38554491--38554667	60	2.9	60	86	4	230	38	2	21	37	1.68
38554471--38554682	30	7.1	29	81	10	207	37	2	22	37	1.69
38556565--38556646	6	14.0	6	78	14	82	51	0	1	47	1.08
38556574--38556635	11	6.0	10	77	19	65	54	0	1	43	1.09
38556565--38556646	31	2.5	33	84	5	105	51	0	1	47	1.08
38556574--38556643	11	6.6	11	75	15	58	52	0	1	45	1.09
38556585--38556640	16	3.6	15	84	13	69	55	0	0	44	0.99
38556930--38557622	76	9.5	76	85	7	797	32	18	15	33	1.93
38557234--38557358	38	3.1	44	65	25	121	36	17	16	30	1.92
38557361--38557657	68	4.4	69	90	2	458	27	20	16	35	1.94
38557609--38557686	29	2.6	29	91	4	120	26	19	16	37	1.93
38557473--38557790	165	1.9	164	91	3	514	27	19	16	35	1.94
38557558--38557751	97	2.0	94	93	3	325	27	19	17	35	1.94
38557635--38557790	65	2.4	65	88	4	215	28	20	16	35	1.94
38569475--38569734	59	4.4	57	71	13	170	35	3	29	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38569652--38569909	30	8.7	29	82	6	268	36	1	22	38	1.66
38569660--38569909	60	4.2	60	88	3	344	37	2	22	38	1.65
38569649--38569926	89	3.1	87	79	7	301	37	2	23	37	1.68
38570866--38570909	22	2.0	23	90	4	72	20	6	6	65	1.39
38571834--38571892	11	5.6	11	76	20	56	54	0	0	45	0.99
38571813--38571892	31	2.5	33	84	8	103	47	0	0	52	1.00
38571811--38571892	6	14.0	6	81	14	73	47	0	0	52	1.00
38571832--38571892	27	2.4	25	88	5	86	52	0	0	47	1.00
38571852--38571892	21	2.0	21	85	9	57	53	0	0	46	1.00
38571832--38571900	27	2.6	27	84	4	79	50	4	0	44	1.21

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