genome.fa.s4.2.7.7.80.10.50.1000.101.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  101  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)
32556975--32557114	31	4.8	27	71	17	93	46	10	19	23	1.81
32557011--32557123	59	1.9	59	87	0	163	46	9	18	24	1.79
32563339--32563433	43	2.2	42	92	1	163	38	21	5	34	1.76
32564382--32564462	29	2.8	29	98	0	153	23	11	16	49	1.77
32572305--32572356	27	2.0	27	84	3	70	32	1	3	61	1.25
32577975--32578249	102	2.7	102	88	1	399	29	24	10	34	1.89
32579061--32579092	10	3.3	10	91	8	57	81	0	0	18	0.70
32579060--32579094	15	2.3	15	90	9	54	80	0	0	20	0.72
32582900--32582931	2	16.0	2	100	0	64	50	0	0	50	1.00
32584247--32584300	6	8.7	6	82	13	65	81	3	0	14	0.82
32584246--32584300	13	4.3	13	86	11	78	81	3	0	14	0.82
32584246--32584301	18	3.0	18	87	7	76	80	3	0	16	0.85
32584247--32584300	24	2.2	26	93	6	94	81	3	0	14	0.82
32599034--32599085	23	2.3	22	80	9	59	42	7	3	46	1.51
32600531--32600593	26	2.4	26	86	5	74	57	1	9	31	1.40
32601082--32601141	6	11.0	6	81	16	69	46	0	1	51	1.10
32601074--32601137	22	3.0	22	79	4	69	45	0	1	53	1.10
32601074--32601141	16	4.2	16	85	7	93	47	0	1	51	1.09
32603009--32603116	57	1.9	57	88	3	164	34	26	5	33	1.80
32603008--32603151	29	5.0	29	84	5	150	34	27	4	34	1.78
32603426--32603619	97	2.0	97	90	2	309	27	19	17	35	1.94
32610274--32610336	2	32.0	2	96	3	119	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32612652--32612681	15	2.0	15	93	0	51	80	0	3	16	0.85
32615313--32615339	2	13.5	2	100	0	54	48	0	0	51	1.00
32615651--32615678	8	3.5	8	100	0	56	0	10	0	89	0.49
32615957--32615995	19	2.0	21	85	10	55	7	33	0	58	1.26
32621533--32621615	36	2.3	35	80	15	89	48	1	1	49	1.16
32623587--32623620	16	2.2	15	89	5	50	61	0	0	38	0.96
32623775--32623804	2	15.0	2	100	0	60	50	0	0	50	1.00
32626210--32626255	21	2.1	22	84	11	60	56	0	15	28	1.39
32627251--32627360	56	2.0	56	98	0	211	43	16	16	23	1.87
32628697--32628759	24	2.6	24	82	5	74	26	12	9	50	1.71
32637991--32638032	17	2.5	18	88	11	63	0	23	0	76	0.79
32638597--32638638	17	2.4	18	78	21	54	50	16	14	19	1.79
32651268--32651336	21	3.3	21	87	4	95	27	14	26	31	1.95
32656976--32657018	2	21.5	2	100	0	86	48	0	0	51	1.00
32663322--32663397	29	2.7	28	80	8	91	56	1	2	39	1.21
32666737--32666795	22	2.6	23	81	10	68	6	28	5	59	1.45
32675097--32675211	59	1.9	59	94	0	203	42	15	6	34	1.74
32680200--32680254	28	2.0	28	85	7	76	23	16	9	50	1.73
32680297--32680337	3	13.3	3	94	5	73	0	34	0	65	0.93
32685336--32685375	17	2.3	18	86	4	55	67	7	0	25	1.16
32685667--32685711	20	2.2	20	88	0	63	33	2	4	60	1.29
32689428--32689466	20	1.9	20	84	5	51	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32689434--32689488	20	2.8	21	81	8	62	32	0	0	67	0.91
32689515--32689555	22	1.9	21	95	5	73	36	4	7	51	1.51
32691598--32691654	21	3.0	18	76	14	60	26	21	19	33	1.97
32691600--32691640	21	2.0	21	95	0	73	21	19	21	36	1.95
32691775--32691890	46	2.6	45	82	5	135	38	18	18	25	1.92
32691818--32691891	21	3.3	22	74	9	60	39	21	20	18	1.93
32723980--32724158	85	2.1	85	95	0	322	44	13	15	25	1.84
32727313--32727368	23	2.6	21	81	10	67	42	10	3	42	1.56
32727328--32727378	18	2.5	20	81	18	61	39	13	1	45	1.55
32728922--32728983	29	2.1	30	87	3	90	58	19	6	16	1.59
32730796--32730834	21	1.9	21	89	5	62	56	10	2	30	1.46
32732655--32732840	41	4.6	41	73	9	157	33	22	28	16	1.95
32732810--32732859	24	2.1	24	88	0	73	36	28	26	10	1.88
32732767--32732899	65	2.0	65	84	2	169	36	22	28	12	1.91
32732832--32733096	41	6.3	41	82	8	316	35	21	27	15	1.94
32736866--32737008	43	3.3	43	84	6	193	24	16	26	32	1.96
32738761--32738902	45	3.2	45	69	4	133	36	6	17	39	1.75
32744920--32744949	6	5.2	6	92	8	53	83	0	16	0	0.65
32744920--32744949	11	2.6	12	94	5	53	83	0	16	0	0.65
32746491--32746546	29	2.0	28	82	3	67	39	10	7	42	1.67
32747073--32747102	10	3.1	10	95	4	53	50	0	0	50	1.00
32747164--32747194	9	3.4	9	90	0	53	29	9	12	48	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32752331--32752385	18	3.3	17	78	17	53	29	0	5	65	1.15
32757440--32757873	216	2.0	216	97	0	814	24	22	16	37	1.94
32758342--32758411	36	1.9	36	97	0	131	51	20	14	14	1.76
32760653--32760694	18	2.3	18	87	0	57	28	9	23	38	1.86
32763912--32763978	24	2.8	24	83	0	89	55	5	10	28	1.57
32767941--32767973	17	1.9	17	100	0	66	24	15	0	60	1.35
32772553--32773370	409	2.0	409	98	0	1586	30	20	21	27	1.98
32785482--32786404	463	2.0	462	95	0	1675	34	14	19	31	1.92
32787278--32787329	22	2.4	22	90	0	86	32	28	25	13	1.93
32787741--32787790	25	1.9	26	84	15	68	42	16	18	24	1.89
32787774--32787829	25	2.2	25	84	9	69	21	19	32	26	1.97
32787821--32787876	25	2.2	25	90	0	85	21	16	35	26	1.94
32788518--32788560	19	2.3	19	87	0	59	39	11	2	46	1.53
32798035--32798080	20	2.3	20	84	0	56	36	10	4	47	1.58
32798839--32798891	26	2.0	26	96	0	97	16	26	24	32	1.97
32802533--32802573	21	1.9	22	90	5	66	26	21	19	31	1.97
32807453--32807896	195	2.3	194	83	4	538	27	20	27	24	1.99
32812494--32812940	195	2.3	194	84	4	553	28	19	26	25	1.99
32814186--32814222	4	9.2	4	87	0	56	29	0	24	45	1.53
32832480--32832534	29	1.9	28	88	3	83	60	23	5	10	1.51
32833003--32833068	19	3.5	19	72	12	64	22	15	30	31	1.95
32833187--32833219	14	2.4	14	90	5	50	21	27	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32838532--32838626	20	5.0	18	71	15	75	40	4	13	42	1.64
32839043--32839077	14	2.5	15	86	13	56	37	0	0	62	0.95
32839759--32839868	52	2.1	51	83	6	132	38	5	15	40	1.70
32841511--32841549	21	1.9	21	89	5	62	28	0	5	66	1.12
32842562--32842609	20	2.6	17	73	20	51	33	2	2	62	1.18
32842604--32842658	28	2.1	27	83	12	71	34	7	1	56	1.38
32850652--32850679	6	4.7	6	100	0	56	32	50	0	17	1.47
32855568--32855609	13	3.2	13	86	6	59	33	0	2	64	1.07
32855646--32855700	17	2.8	20	73	18	62	52	0	0	47	1.00
32868096--32868393	30	9.9	30	81	9	315	39	1	23	36	1.62
32868098--32868392	89	3.3	88	88	5	378	38	1	23	36	1.62
32870163--32870287	49	2.6	49	90	1	198	24	21	16	37	1.93
32870602--32870764	85	1.9	85	83	0	209	23	21	16	38	1.93
32870813--32870977	85	1.9	85	85	0	222	22	23	16	37	1.94
32870480--32871202	208	3.5	209	88	0	1011	23	19	17	39	1.93
32870239--32871202	417	2.4	404	86	3	1284	23	20	16	39	1.92
32879346--32879629	29	9.7	29	68	16	95	36	2	25	35	1.68
32879375--32879651	30	9.4	30	81	10	284	37	1	25	34	1.67
32879372--32879651	59	4.7	58	82	9	334	37	1	25	35	1.67
32882041--32882224	23	7.9	23	81	4	199	47	13	5	33	1.66
32882041--32882224	46	4.0	46	86	4	253	47	13	5	33	1.66
32882041--32882206	69	2.4	70	84	4	228	47	13	4	33	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32882220--32882253	16	2.1	16	94	0	59	50	20	5	23	1.70
32894487--32894511	12	2.1	12	100	0	50	44	0	24	32	1.54
32895280--32895306	12	2.2	12	100	0	54	48	7	0	44	1.31
32901604--32901660	30	1.9	30	88	0	87	31	19	7	42	1.78
32901546--32901736	89	2.1	89	81	3	224	26	16	10	45	1.81
32901949--32902044	31	3.4	27	70	22	79	43	13	16	26	1.85
32901965--32902054	27	3.2	27	65	17	65	52	10	13	24	1.71
32901918--32902075	59	2.6	59	79	5	185	48	13	14	23	1.80
32914644--32914673	14	2.2	14	94	5	53	13	0	40	46	1.43
32917731--32917941	39	5.4	39	80	10	236	36	21	18	24	1.95

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